Announcement

**gsgs** · April 18, 2011, 05:11 AM

Re: Sequences at Genbank!

Managua in Nicaragua had only ~30% cancun and
~70% airplane/Newberry-SC/cancun2/
7% from the England/195/2009/04/28 strain with a new PB2
1% original

Code:

                                        000000000000000111111111111111111111222 00000000000000000111111111111112222222 000000000000000000011111111111111222 00000000000000000001111111111111 000000000000000011111111 000000000000000000011111 000000000000 0000000000000000000 
                                        001444455568999001111222334555577779001 00111123345677779011233346667790111222 000133456667777888900001244556789001 00111233445556688890000112233344 011223333677889901111222 001111123446678889901113 011134456688 0001111112233346666 
                                        699115646738258174556678233026745782476 39114700587712791508704720292408699357 058814052376799058702558668267094895 47448123361335657732339274800908 434692455399148990348459 241123651783743480313589 100958950605 1570358893936640446 
                                        263016064995474776891951906929732350613 53127150469873152855837588928195303071 871733521641589822297564348761798341 18255018506188526969162212125586 421087257938662627532843 642846176171524653974842 528243250353 8122976907866734233 
-codon-position-------------------------2 12  1            1     12 1 2      1  2  1  1          21  1 1     11    11  2  111    221 11   112 2        11   2 112  2 1  112     21  1     11 2  21  1  1   1   1      221111221 11 1        2            11     11  1 1  121 1  
---Index--------------------------------CAGATACGGCTGATCGGCAACGCAAGGGAAAGCGCGCCG TCATCAAAGGCGGCTGGACTTACACCGAAGAAGCGACA AGTGTACTTCGACCCTGCAGGAGGCAGTTGATTACG CGACGTTTGCAGATGTCTATGCAGGCACTGCG CCCAGCAGTAAGTGTAGGCGAGCG CTACAATCGCAAAAATCAGGCCGA CACCCTGGGTAT GTCTGGAAAGCAGAGGACA 
   1 >A/******/index/2009/02/01         ....................................... ...................................... .................................... ................................ ........................ ........................ ............ ...................        0      0 ,      0      0       1:>A/******/index/2009/02/01         
   2 >A/Managua/4064.01/2009/08/08      ....................................... ...................................... .................................... ................................ ...........A............ ........................ ............ ...................       14      1 ,     14      1       2:>A/Managua/4064.01/2009/08/08      
   3 >A/Managua/585.01/2009/07/12       ......................................A ...................................... .................................... .............A..............C.T. ..A.A..............AGA.. ........A....G.......... ......A.A... .............G.....       21     14 ,     21     14       3:>A/Managua/585.01/2009/07/12       
   4 >A/Managua/3244.01/2009/08/18      ..................................T...A CTG................................G.. .....GT.......T............C...C.... .............A..........A...C.T. ..A.A..............AGA.. ........A....G.......... ......A.A... .........A...G.....       28     26 ,     28     26       4:>A/Managua/3244.01/2009/08/18      
   5 >A/Managua/3013.01/2009/10/11      ..................................T...A CTG................................G.. .....GT.......T............C...C.... .............A..........A...C.T. ..A.A..............AGA.. ........A....G.......... ......A.A... .........A...G.....       26     26 ,     26     26       5:>A/Managua/3013.01/2009/10/11      
   6 >A/Managua/554.01/2009/08/10       ..................................T...A CTG................................G.. .....GT.......T............C...C.... .............A..........A...C.T. ..A.A..............AGA.. ........A....G.......... ......A.A... .........A...G.....       26     26 ,     26     26       6:>A/Managua/554.01/2009/08/10       
   7 >A/Managua/2093.01/2009/08/18      ..................................T...A CTG................................G.. .....GT.......T............C...C.... .............A..........A...C.T. ..A.A..............AGA.. ........A....G.......... ......A.A... .........A...G.....       26     26 ,     26     26       7:>A/Managua/2093.01/2009/08/18      
   8 >A/Managua/432.01/2009/08/22       ..................................T...A .TG................................G.. .....GT............................. .............A..........A...C.T. ..A.A..............AGA.. ........A....G.......... ......A.A... .............G.....       28     21 ,     28     21       8:>A/Managua/432.01/2009/08/22       
   9 >A/Managua/3014.02/2009/09/11      ......................................A .TG................................G.. .....GT............................. .............A..........A...C.T. ..A.A..............AGA.. ........A....G.......... ......A.A... .............G.....       23     20 ,     23     20       9:>A/Managua/3014.02/2009/09/11      
  10 >A/Managua/466.01/2009/07/27       ......................................A .TG................................G.. .....GT.........................C... .............AA.T.......A...C.T. ..A.A..............AGA.. ........A....G.......... ......A.A... .............G.....       23     23 ,     23     23      10:>A/Managua/466.01/2009/07/27       
  11 >A/Managua/4451.02/2009/08/04      ......................................A .TG................................G.. .....GT.........................C... .............AA.T.......A...C.T. ..A.A..............AGA.. ........A....G.......... ......A.A... .............G.....       25     23 ,     25     23      11:>A/Managua/4451.02/2009/08/04      
  12 >A/Managua/3421.02/2009/08/24      ......................................A .TG................................G.. .....GT............................. .............A..........A...C.T. ..A.A..............AGA.. ........A....G.......... ......A.A... .............G.....       28     20 ,     28     20      12:>A/Managua/3421.02/2009/08/24      
  13 >A/Managua/4218.01/2009/08/17      ......................................A .TG................................G.. .....GT............................. .............A..........A...C.T. ..A.A..............AGA.. ........A....G.......... ......A.A... .............G.....       23     20 ,     23     20      13:>A/Managua/4218.01/2009/08/17      
  14 >A/Managua/5708.01/2009/03/19      A...............A..GA.................A .....G........C....C...G.T...........C ...A..........................G....A ............CA..........A....ATA ....A..............A.A.. ........AA...G.C.....A.. ..T.TCA.A... .....AGG..AG.G.....       40     39 ,     40     39      14:>A/Managua/5708.01/2009/03/19      
  15 >A/Managua/3246.01/2009/03/25      A...............A..GA.................A .....G........C....C...G.T...........C ...A..........................G....A ............CA..........A....ATA ....A..............A.A.. ........AA...G.C.....A.. ..T.TCA.A... .....AGG..AG.G.....       39     39 ,     39     39      15:>A/Managua/3246.01/2009/03/25      
  16 >A/Managua/07193_09/2010/02/03     ................A.....................A ...............A.....................C ..............................G....A .............A..........A.....T. ....A..............A.A.. ........AA...G.C........ ......A.A... ...........G.G.....       30     20 ,     30     20      16:>A/Managua/07193_09/2010/02/03     
  17 >A/Managua/5295.02/2009/07/23      ......................................A ...................................... ...................................A .............A................T. ....A..............A.A.. ........A....G.......... ......A.A... ...........G.G.....       19     13 ,     19     13      17:>A/Managua/5295.02/2009/07/23      
  18 >A/Managua/2323.02/2009/08/18      .....................A..........T.....A .....................G................ .................................... T............A............G...T. ....A..............A.A.. ........A....G.........G ......A.AC.. .............G.....       25     18 ,     25     18      18:>A/Managua/2323.02/2009/08/18      
  19 >A/Managua/12.01/2009/09/14        .....................A...A......T...T.. .............T.......G.........G...... .............Y...................... T......A.....A............R...T. ....A..............A.A.. ........A....G....A....G ......A.AC.. .............G.....       25     24 ,     25     24      19:>A/Managua/12.01/2009/09/14        
  20 >A/Managua/1909.02/2009/09/12      .....................A...A......T...T.. .............T.......G.........G...... ..........................A......... T......A.....A............G...T. ....A..............A.A.. ........A....G....A....G ......A.AC.. .............G.....       26     24 ,     26     24      20:>A/Managua/1909.02/2009/09/12      
  21 >A/Managua/3359.01/2009/08/12      .....................A..........T.....A .....................G.........G...... ..........................A......... T............A............G...T. ....A..............A.A.. ........A....G.........G ......A.AC.. .............G.....       20     20 ,     20     20      21:>A/Managua/3359.01/2009/08/12      
  22 >A/Managua/4570.01/2009/08/16      .....................A..........T.....A .....................G.........G...... ..........................A......... T............A............G...T. ....A..............A.A.. ........A....G.........G ......A.AC.. .............G.....       22     20 ,     22     20      22:>A/Managua/4570.01/2009/08/16      
  23 >A/Managua/2339.03/2009/08/11      ......................................A ...C........A......................... ............T....................... ..G..........A................T. ....A..............A.A.. ....G...A....G.....A.... ......A.A..C .............G.....       21     18 ,     21     18      23:>A/Managua/2339.03/2009/08/11      
  24 >A/Managua/4063.01/2009/08/31      ......................................A ...C........A......................... .................................... ..G..........A................T. ....A..............A.A.. ....G...A....G.....A.... ......A.A..C .............G.....       20     17 ,     20     17      24:>A/Managua/4063.01/2009/08/31      
  25 >A/Managua/4972.02/2009/09/10      ......A...C....A......................A ...........................G....A..... ........C...............T........... .A..........GA......A.........T. ....A..............A.AT. T.....C.A....G.......... T.....AAA... A............G.....       28     27 ,     28     27      25:>A/Managua/4972.02/2009/09/10      
  26 >A/Managua/1419.02/2009/09/12      ......A...C....A......................A ...........................G....A..... ........C...............T........... .A..........GA......A.........T. ....A..............A.AT. T.....C.A....G.......... T.....AAA... A............G.....       27     27 ,     27     27      26:>A/Managua/1419.02/2009/09/12      
  27 >A/Managua/287.01/2009/08/20       ..................G...................A ...................................... .A.................................. .............A................T. ....A........A.....A.A.. ........A....G.......... ......A.A... .............G.....       17     14 ,     17     14      27:>A/Managua/287.01/2009/08/20       
  28 >A/Managua/4147.01/2009/08/22      ......................................A ...................................... .................................... .............A................T. ....A........A.....A.A.. ........A....G.......... ......A.A... .............G.....       19     12 ,     19     12      28:>A/Managua/4147.01/2009/08/22      
  29 >A/Managua/4407.02/2009/07/27      ......................................A ...................................... .................................... .............A................T. ....A........A.....A.A.. ........A....G...G...... ......A.A... .............G.....       14     13 ,     14     13      29:>A/Managua/4407.02/2009/07/27      
  30 >A/Managua/5115.01/2009/09/11      ..............T.......................A ...........A............T............. .................................... .............A.......T........T. ....A.......CA.....A.A.. .....G..A....G...G...... ......A.A... .............G.....       21     19 ,     21     19      30:>A/Managua/5115.01/2009/09/11      
  31 >A/Managua/5258.02/2009/09/29      ..............T.......................A ...........A............T............. ....................A............... .............A.......T........T. ....A.......CA.....A.A.. .....G..A....G...G...... ......A.A... .............G.....       26     20 ,     26     20      31:>A/Managua/5258.02/2009/09/29      
  32 >A/Managua/164.01/2009/08/18       ......................................A ...................................... .................................... .............A................T. ....A........A.....A.A.. ........A....G...G...... ......A.A... .............G.....       15     13 ,     15     13      32:>A/Managua/164.01/2009/08/18       
  33 >A/Managua/5401.01/2009/09/16      ......................................A ...............A...................... .................................... .............A................T. ....A........A.....A.A.. ........A....G...G...... ......A.A... .............G.....       16     14 ,     16     14      33:>A/Managua/5401.01/2009/09/16      
  34 >A/Managua/1984.02/2009/08/30      ......................................A ........A............................. .............T...................... .............A................T. ....A........A.....A.A.. ........A....G...G...... ......A.A... .............G.....       21     15 ,     21     15      34:>A/Managua/1984.02/2009/08/30      
  35 >A/Managua/5212.04/2009/08/11      ......................................A ........A............................. .............T...................... .............A................T. ....A........A.....A.A.. ........A....G...G...... ......A.A... ...C.........G.A...       23     17 ,     23     17      35:>A/Managua/5212.04/2009/08/11      
  36 >A/Managua/4702.04/2009/08/19      ......................................A ........A............................. .............T......R............... .............A................T. ....A........A.....A.A.. ........A....G...G...... ......A.A... ...C.........G.A...       18     18 ,     18     18      36:>A/Managua/4702.04/2009/08/19      
  37 >A/Managua/5036.01/2009/08/11      ......................................A ........A............................. .............T...................... .............A................T. ....A........A.....A.A.. ........A....G...G...... ......A.A... ...C.........G.A...       18     17 ,     18     17      37:>A/Managua/5036.01/2009/08/11      
  38 >A/Managua/2155.01/2009/08/17      .......A................G.............. ........A............................. ...............CAT..AT.............. .............A................T. ....A........A.....A.A.. ........A....G...G...... ......A.A... ...C.........G.....       27     21 ,     27     21      38:>A/Managua/2155.01/2009/08/17      
  39 >A/Managua/435.01/2009/07/02       .......A................G.............. .......G.........G..C........A...T.... ...............CAT..AT.............. ...A............................ ........................ .......T................ ............ ...................       18     14 ,     18     14      39:>A/Managua/435.01/2009/07/02       
  40 >A/Managua/5590.02/2009/09/14      .......AA...............G.............. .......G.........G..C........A...Y.... ...............CA................... ...A............................ .......................A .......T......G......... ............ ...................       16     14 ,     16     14      40:>A/Managua/5590.02/2009/09/14      
  41 >A/Managua/171.01/2009/06/07       .......A................G.............. .......G.........G..C........A...T.... ...............CA................... ...A............................ ........................ .......T......G......... ............ ...................       12     12 ,     12     12      41:>A/Managua/171.01/2009/06/07       
  42 >A/Managua/5453.01/2009/06/15      .......A................G.............. .......G.........G..C........A...T.... ...............C.................... ...A......G..................... ........................ .......T................ ............ ..............A....       13     12 ,     13     12      42:>A/Managua/5453.01/2009/06/15      
  43 >A/Managua/5221.03/2009/06/13      .......A................G.............. .......G.........G..C........A...T.... ...............C.................... ...A.C....G..................... ........................ .......T................ ............ ..............A....       13     13 ,     13     13      43:>A/Managua/5221.03/2009/06/13      
  44 >A/Managua/2978.04/2009/07/29      .......A................G......A....... .......G.........G..C........A...T.... ...........C...C.................... ...A.C....G..................... ........................ .......T....G........... ............ ..............A....       18     16 ,     18     16      44:>A/Managua/2978.04/2009/07/29      
  45 >A/Managua/4960.01/2009/07/28      .......A................G......A....... .......G.........G..C........A...T.... ...........C...C.................... ...A.C....G..................... ........................ .......T....G........... ............ ..............A....       17     16 ,     17     16      45:>A/Managua/4960.01/2009/07/28      
  46 >A/Managua/3214.04/2009/07/16      .......A................G......A....... .......G.........G..C........A...T.... ...........C...C.........G.......... ...A.C....G..................... T....................... .......T................ ............ ..............A....       17     17 ,     17     17      46:>A/Managua/3214.04/2009/07/16      
  47 >A/Managua/3231.02/2009/07/24      .......A................G......A....... .......G.........G..C........A...T.... ...........C...C.........G.......... ...A.C....G..................... T....................... .......T................ ............ ..............A....       18     17 ,     18     17      47:>A/Managua/3231.02/2009/07/24      
  48 >A/Managua/2152.01/2009/06/13      .......A................G.............. .......G.........G..C........A...T.... ...............C.................... ...A.C....G..................... ........................ .......T................ ............ ..............A....       13     13 ,     13     13      48:>A/Managua/2152.01/2009/06/13      
  49 >A/Managua/4085.02/2009/06/13      .......A................G.............. .......G.........G..C........A...T.... ...............C.................... ...A.C....G..................... ........................ .......T................ ............ ..............A....       13     13 ,     13     13      49:>A/Managua/4085.02/2009/06/13      
  50 >A/Managua/1973.02/2009/07/22      .......A................G.............. .......G.........G..C........A...T.... ...............C.................... ...A......G..................... ........................ .......T................ ............ ..............A....       14     12 ,     14     12      50:>A/Managua/1973.02/2009/07/22      
  51 >A/Managua/2729.02/2009/07/07      .......A................G.............. .......G.........G..C........A...T.... ...............C.................... ...A.............C.............. ........................ .......T................ ............ ...................       20     11 ,     20     11      51:>A/Managua/2729.02/2009/07/07      
  52 >A/Managua/792.01/2009/06/13       .......A................G.............. .......G.........G..C........A...T.... ...............C.................... ...A.............C.............. ........................ .......T..............A. ............ ...................       12     12 ,     12     12      52:>A/Managua/792.01/2009/06/13       
  53 >A/Managua/578.01/2009/06/12       .......A................G.............. .......G.........G..C........A...T.... ...............C.................... ...A.............C.............. ........................ .......T................ ............ ...................       11     11 ,     11     11      53:>A/Managua/578.01/2009/06/12       
  54 >A/Managua/5586.01/2009/06/30      .......A................G.............. .......G.........G..C........A...T.... ...............C.................... ...A.............C.............. ........................ .......T................ ............ ...................       14     11 ,     14     11      54:>A/Managua/5586.01/2009/06/30      
  55 >A/Managua/1455.01/2009/06/06      .......A................G.............. .......G.........G..C........A...T.... ...............C.................... ...A............................ ........................ .......T................ ............ ...................       11     10 ,     11     10      55:>A/Managua/1455.01/2009/06/06      
  56 >A/Managua/109.01/2009/06/13       .......A................G.............. .......G.........G..C........R......A. ...............C.................... ...A.............C.............. ........................ .......T................ ............ ...................       12     11 ,     12     11      56:>A/Managua/109.01/2009/06/13       
  57 >A/Managua/2330.02/2009/06/16      .......A................G.............. .......G.........G..C...............A. ...............C.................... ...A.....T...................... ........................ .......T................ ............ ...................       11     10 ,     11     10      57:>A/Managua/2330.02/2009/06/16      
  58 >A/Managua/5307.01/2009/08/15      ...G...A................G.............. .......G.........G..C...............A. ...............C.................... ...A.....T...................... ...............G........ .......T...............C ............ ...................       20     13 ,     20     13      58:>A/Managua/5307.01/2009/08/15      
  59 >A/Managua/3490.03/2009/07/14      ...G...A................G.............. .......G.........G..C...............A. ...............C.................... ...A.....T...................... ...............G........ .......T................ ............ ...................       16     12 ,     16     12      59:>A/Managua/3490.03/2009/07/14      
  60 >A/Managua/2750.01/2009/06/05      .......A................G.............. ......GG.........G..C...............A. ...............C.................... ...A.....T...................... ........................ .......T................ ............ ........C..........       12     12 ,     12     12      60:>A/Managua/2750.01/2009/06/05      
  61 >A/Managua/167.01/2009/06/11       .......A................G.............. ......GG.........G..C...............A. ...............C.................... ...A.....T...................... ........................ .......T................ ............ ........C..........       14     12 ,     14     12      61:>A/Managua/167.01/2009/06/11       
  62 >A/Managua/2652.01/2009/06/05      .......A................G.............. ......GG.........G..C...............A. ...............C.................... ...A.....T...................... ........................ .......T................ ............ ........C..........       12     12 ,     12     12      62:>A/Managua/2652.01/2009/06/05      
  63 >A/Managua/516.01/2009/06/08       .......A................G.............. ......GG.........G..C...............A. ...............C.................... ...A.....T...................... ........................ .......T................ ............ ........C..........       12     12 ,     12     12      63:>A/Managua/516.01/2009/06/08       
  64 >A/Managua/4467.05/2009/06/01      .......A................G.............. ......GG.........G..C...............A. ...............C.................... ...A.....T...................... ........................ .......T................ ............ ........C..........       12     12 ,     12     12      64:>A/Managua/4467.05/2009/06/01      
  65 >A/Managua/4016.02/2009/06/05      .......A................G.............. ......GG.........G..C...............A. ...............C.................... ...A.....T...................... ........................ .......T................ ............ ........C..........       12     12 ,     12     12      65:>A/Managua/4016.02/2009/06/05      
  66 >A/Managua/168.02/2009/06/09       .......A................G.............. ......GG.........G..C...............A. ...............C.................... ...A.....T...................... ........................ .......T................ ............ ........C..........       12     12 ,     12     12      66:>A/Managua/168.02/2009/06/09       
  67 >A/Managua/4905.02/2009/06/05      .......A................G.............. .......G.........G..C...............A. ...............C.................... ...A.....T...................... ........................ .......T................ ............ ........C..........       14     11 ,     14     11      67:>A/Managua/4905.02/2009/06/05      
  68 >A/Managua/3119.01/2009/06/01      ..A....A................G.............. .......G.........G..C...............A. ............T..C.................... ...A.....T...................... ........................ .......T................ ............ ...................       12     12 ,     12     12      68:>A/Managua/3119.01/2009/06/01      
  69 >A/Managua/5339.04/2009/07/27      ..A....A................G.............. .......G.........G..C.......G.......A. ...............C.............T...... ...A.....T...................... ........................ .......T................ ............ .................T.       15     14 ,     15     14      69:>A/Managua/5339.04/2009/07/27      
  70 >A/Managua/265.01/2009/07/16       ..A....A................G.............. .......G.........GT.C.......G.......A. ...............C.............T...... ...A.....T...................... ........................ .......T................ ............ .................T.       17     15 ,     17     15      70:>A/Managua/265.01/2009/07/16       
  71 >A/Managua/3225.03/2009/07/27      ..A....A................G.............. .......G.........GT.C.......G.......A. ...............C.............T...... ...A.....T...................... ........................ .......T................ ............ .................T.       17     15 ,     17     15      71:>A/Managua/3225.03/2009/07/27      
  72 >A/Managua/5273.02/2009/06/20      ..A....A................G.............. .......G.........G..C...............A. ...............C.................... ...A.....T...................... ........................ .C.T...T................ ............ ....A..............       14     14 ,     14     14      72:>A/Managua/5273.02/2009/06/20      
  73 >A/Managua/462.01/2009/06/26       ..A....A................G.............. .......G.........G..C...............A. ...............C.................... ...A.....T...................... ........................ .C.T...T................ ............ ....A..............       16     14 ,     16     14      73:>A/Managua/462.01/2009/06/26       
  74 >A/Managua/5364.01/2009/07/21      ..A....A................G.............. .......G.........G..C...............A. ...............C.................... ...A.....T...................... ........................ .......T................ ............ ...................       15     11 ,     15     11      74:>A/Managua/5364.01/2009/07/21      
  75 >A/Managua/1637.01/2009/06/13      ..A....A................G.............. .......G.........G..C...............A. ...............C.................... ...A.....T...................... ........................ .......T................ ............ ...................       12     11 ,     12     11      75:>A/Managua/1637.01/2009/06/13      
  76 >A/Managua/0536N/2009/06/26        ..................G.....G.............. .......G.........G..C................. ...............C.................... ...A............................ ........................ .......T................ ............ ..A................       12      9 ,     12      9      76:>A/Managua/0536N/2009/06/26        
  77 >A/Managua/1127.02/2009/06/29      .......A................G.............. .......G.........G..C................. ...............C.................... ...A....A....................... ........................ .......T................ ............ ..A................       13     10 ,     13     10      77:>A/Managua/1127.02/2009/06/29      
  78 >A/Managua/655.02/2009/06/12       .......A................G.............. .......G.........G..C................. ...............C.................... ...A....A....................... ........................ .......T................ ............ ..A................       10     10 ,     10     10      78:>A/Managua/655.02/2009/06/12       
  79 >A/Managua/4514.03/2009/06/21      .......A................G.............. .......G.........G..C................. ...............C.................... ...A............................ ...G.................... .......T................ ............ ..A................       13     10 ,     13     10      79:>A/Managua/4514.03/2009/06/21      
  80 >A/Managua/5665.01/2009/06/22      .......A................G.............. .......G.........G..C................. ...............C.................... ...A............................ ...G.................... .......T.....G.......... ............ ..A................       12     11 ,     12     11      80:>A/Managua/5665.01/2009/06/22      
  81 >A/Managua/611.01/2009/06/25       .......A................G.............. .......G.........G..C................. ...............C.................... ...A............................ ...G.................... .......T................ ............ ..A................       13     10 ,     13     10      81:>A/Managua/611.01/2009/06/25       
  82 >A/Managua/4197.01/2009/07/06      .......A................G....T......... .......G.........G..C................. ...............C.................... ...A............................ ........................ .......T................ ............ ..A................       15     10 ,     15     10      82:>A/Managua/4197.01/2009/07/06      
  83 >A/Managua/1244.01/2009/08/28      .......A................G....T......... .......G.........G..C................. ...............C.................... ...A............................ ........................ .......T..............A. ............ ..A................       26     11 ,     26     11      83:>A/Managua/1244.01/2009/08/28      
  84 >A/Managua/WRAIR8964F/2009/06/06   .G.....A................G.............. .......G............C................. ...............C..................T. ...A............................ ........................ .......T................ ............ ..A................       14     10 ,     14     10      84:>A/Managua/WRAIR8964F/2009/06/06   
  85 >A/Managua/WRAIR8997F/2009/06/13   .G.....A................G.............. .......G............C................. ...............C..................T. ...A............................ ........................ ........A............... ............ ...................       26      9 ,     26      9      85:>A/Managua/WRAIR8997F/2009/06/13   
  86 >A/Managua/5230.01/2009/08/05      .......A.........T......G..A.........T. .......G..T......G..C.T............... ...............C..G................. ...A...........C................ ................A....... ........................ ............ ...................       16     15 ,     16     15      86:>A/Managua/5230.01/2009/08/05      
  87 >A/Managua/1256.04/2009/08/04      .......A.........T......G..A.........T. .......G..T......G..C.T............... ...............C..G................. ...A...........C................ ................A....... ........................ ............ ...................       17     15 ,     17     15      87:>A/Managua/1256.04/2009/08/04      
  88 >A/Managua/65.02/2009/08/25        .......A.........T......G..A.........T. .......G..T......G..C.T............... ...............C..G................. ...A...........C................ ................A....... ........................ ............ ...................       22     15 ,     22     15      88:>A/Managua/65.02/2009/08/25        
  89 >A/Managua/4736.02/2009/09/01      .......A................G.............. .......G..T......G..C................. ...............C.................... ...A...........C................ .................A...... ........................ ............ ...................       20     10 ,     20     10      89:>A/Managua/4736.02/2009/09/01      
  90 >A/Managua/3435.01/2009/08/18      .....G.A...A.C..........G..........A... .......G.........G.................... ..A....C.......C.................... ...A.......A.................... .................A...... ..........G.....T....... ............ ...................       16     16 ,     16     16      90:>A/Managua/3435.01/2009/08/18      
  91 >A/Managua/3434.02/2009/08/27      .....G.A...A.C..........G..........A... .......G.........G.................... ..A....C.......C.................... ...A.......A.................... .................A...... ..........G.....T....... ............ ...................       18     16 ,     18     16      91:>A/Managua/3434.02/2009/08/27      
  92 >A/Managua/4757.02/2009/08/18      .....G.A...A.C..........G..........A... .......G.........G.................... ..A....C.......C.................... ...A.......A.................... .................A...... ..........G.....T....... ............ ...................       19     16 ,     19     16      92:>A/Managua/4757.02/2009/08/18      
  93 >A/Managua/4606.06/2009/07/12      .....G.A...A.C..........G..........A... .......G.........G.................... ..A....C.......C.................... ...A.......A.................... .......................A ..........G.....T....... ............ ...................       16     16 ,     16     16      93:>A/Managua/4606.06/2009/07/12      
  94 >A/Managua/2999.03/2009/08/20      .....G.A...A.C..........G..........A... .......G.........G.................... ..A....C.......C.................... ...A.......A.................... .................A...... ..........G.....T....... ............ ...................       16     16 ,     16     16      94:>A/Managua/2999.03/2009/08/20      
  95 >A/Managua/989.01/2009/08/18       .....G.A...A.C..........G..........A... .......G.........G.................... ..A....C.......C.................... ...A.......A.................... .................A...... ..........G.....T....... ............ ...................       18     16 ,     18     16      95:>A/Managua/989.01/2009/08/18       
  96 >A/Managua/5119.06/2009/08/11      .....G.A...A.C..........G..........A... .......G.........G.................... ..A....C.......C.................... ...A.......A.................... .................A...... ..........G.....T....... ............ ...................       18     16 ,     18     16      96:>A/Managua/5119.06/2009/08/11      
  97 >A/Managua/209.01/2009/08/03       .......A...A.C..........G..........A... .......G.........G.................... ..A....C.......C.................... ...A............................ .................A...... ..........G............. ............ ...................       21     13 ,     21     13      97:>A/Managua/209.01/2009/08/03       
  98 >A/Managua/4943.09/2009/07/06      .......A................G.............. .......G.A.......G.................... ...............C.................... ...A..............T...G....T.... ........................ ........................ ............ ...................       12     10 ,     12     10      98:>A/Managua/4943.09/2009/07/06      
  99 >A/Managua/5248.03/2009/08/31      .......AA..............GG.............. .......G.A.......G.................... ...............C.................... ...A..............T...G....T.... ........................ .........T.............. .G.......... ................G..       20     15 ,     20     15      99:>A/Managua/5248.03/2009/08/31      
 100 >A/Managua/1356.03/2009/08/11      .......AA..............GG.............. .......G.A.......G.................... ...............C.................... ...A..............T...G....T.... ........................ .........T.............. .G.......... ................G..       17     15 ,     17     15     100:>A/Managua/1356.03/2009/08/11      
 101 >A/Managua/3438.02/2009/07/21      .......A.............A..G.............. .......G.A.......G.................... ...............C.................... ...A..............T...G....T.... ........................ ........................ .G.......... ...................       14     12 ,     14     12     101:>A/Managua/3438.02/2009/07/21      
 102 >A/Managua/1836.02/2009/07/30      .......A.A...........A..G.............. .......G.A.......G.................... .........T.....C.................... ...A..............T...G....T.... ..............C......... ........................ .G.T........ .C.................       19     17 ,     19     17     102:>A/Managua/1836.02/2009/07/30      
 103 >A/Managua/3083.01/2009/08/10      .......A.A...........A..G.............. .......G.A.......G.................... .........T.....C.................... ...A..............T...G....T.... ..............C......... ........................ .G.T........ .C.................       18     17 ,     18     17     103:>A/Managua/3083.01/2009/08/10      
 104 >A/Managua/5227.04/2009/08/22      ....C..A.............A..G.............. .......G.A.......G........A........... ..........A....C.................... ...A..............TC..G....T.... ..............C......... ........................ .G.T......G. ...................       19     19 ,     19     19     104:>A/Managua/5227.04/2009/08/22      
 105 >A/Managua/3507.01/2009/08/31      ....C..A.............A..G.............. .......G.A.......G........A..A........ ..........A....C.................... ...A..............TC..G....T.... ..............C......... ........................ .G.T......G. ...................       21     20 ,     21     20     105:>A/Managua/3507.01/2009/08/31      
 106 >A/Managua/5399.04/2009/08/07      ....C..A.............A..G.............. .......G.A.......G........A........... ..........A....C.................... ...A..............TC..G....T.... ..............C......... ........................ .G.T......G. ...................       19     19 ,     19     19     106:>A/Managua/5399.04/2009/08/07      
 107 >A/Managua/3642.04/2009/08/13      ....C..A.............A..G.............. .......G.A.......G........A........... ..........A....C.................... ...A..............TC..G....T.... ..............C......... ........................ .G.T......G. ...................       20     19 ,     20     19     107:>A/Managua/3642.04/2009/08/13      
 108 >A/Managua/1264.03/2009/07/25      .......A................G.............. .......G.A.......G.................... ...............C.................... ...A..............T...G....T.... ........C............... ........................ ............ ...................       13     11 ,     13     11     108:>A/Managua/1264.03/2009/07/25      
 109 >A/Managua/451.01/2009/08/03       .......A................G.............. .......G.A.......G.................... ...............C.................... ...A..............T...G....T.... ........................ ........................ ............ ...................       16     10 ,     16     10     109:>A/Managua/451.01/2009/08/03       
 110 >A/Managua/4590.03/2009/07/22      ......................T...A...G..A..... ....T..G........AG.................... G......................A.........G.. ...A..C......................... .T................T..... ..................A..... ............ ...................       16     16 ,     16     16     110:>A/Managua/4590.03/2009/07/22      
 111 >A/Managua/2275.01/2009/08/11      ......................T...A...G..A..... ....T..G........AG.................... G..................A...A.........G.. ...A..C......................... .T.......G........T..... ..................A..... ............ ...................       18     18 ,     18     18     111:>A/Managua/2275.01/2009/08/11      
 112 >A/Managua/5747.02/2009/08/15      ......................T...A...G..A..... ....T..G........AG.................... G..................A...A.........G.. ...A..C......................... .T.......G........T..... ..G...............A..... ............ ...................       19     19 ,     19     19     112:>A/Managua/5747.02/2009/08/15      
 113 >A/Managua/473.02/2009/08/15       ......................T...A...G..A..... ....T..G........AG.................... G..................A...A.........G.. ...A..C......................... .T.......G........T..... ..G...............A..... ............ ...................       19     19 ,     19     19     113:>A/Managua/473.02/2009/08/15       
 114 >A/Managua/4012.01/2009/08/11      ......................T...A...G..A..... ....T..G........AG.................... G..................A...A.........G.. ...A..C......................... .T.......G........T..... ..................A..... ............ ...................       18     18 ,     18     18     114:>A/Managua/4012.01/2009/08/11      
 115 >A/Managua/921.02/2009/08/13       ......................T...A...G..A..... ....T..G........AG.................... G..................A...A....C....G.. ...A..C......................... .T.......G........T..... ..................A..... ............ ...................       19     19 ,     19     19     115:>A/Managua/921.02/2009/08/13       
 116 >A/Managua/527.04/2009/08/13       ......................T...A...G..A..... ....T..G........AG.................... G..................A...A....C....G.. ...A..C......................... .T.......G........T..... ..................A..... ............ ...................       19     19 ,     19     19     116:>A/Managua/527.04/2009/08/13       
 117 >A/Managua/4747.01/2009/07/22      ......................T...A...G..A..... ....T..G........AG.................... G......................A.........G.. ...A..C......................... .T................T..... ..................A..... ............ ...................       16     16 ,     16     16     117:>A/Managua/4747.01/2009/07/22      
 118 >A/Managua/4951.02/2009/07/24      .......A....G.......................... .......G.........G................A... .A..C............................... ...AA.........A..........T...... .....T..C.G............. ...........G............ ............ ...................       20     15 ,     20     15     118:>A/Managua/4951.02/2009/07/24      
 119 >A/Managua/572.02/2009/09/05       .......A....G.......................... .......G.........G................A... ....C............................... ...AA.........A..........T...... .....T..C.G............. ...........G............ ............ ...................       22     14 ,     22     14     119:>A/Managua/572.02/2009/09/05       
 120 >A/Managua/4935.03/2009/06/15      .......A....G.......................... .......G.........G................A... ....C.....................A......... ...AA.........A..........T...... .....T..C.G............. ...........G............ ............ ...................       17     15 ,     17     15     120:>A/Managua/4935.03/2009/06/15      
 121 >A/Managua/1077.04/2009/08/05      .......A....................C.......... .......G.........G............G....... ........................T........... ...AA.........A................. .....T.....A............ ...........G............ ............ ............A.....C       15     14 ,     15     14     121:>A/Managua/1077.04/2009/08/05      
 122 >A/Managua/3189.01/2009/06/29      .......A....................C.......... .......G.........G............G....... ........................T........... ...AA.........A................. .....T.....A............ ...........G............ ............ ............A.....C       15     14 ,     15     14     122:>A/Managua/3189.01/2009/06/29      
 123 >A/Managua/5363.02/2009/06/13      .......A....................C.......... .......G.........G............G....... ........................T........... ...AA.........A................. .....T.....A............ ...........G............ ............ ............A.....C       14     14 ,     14     14     123:>A/Managua/5363.02/2009/06/13      
 124 >A/Managua/1054.02/2009/08/16      .......A....................C.......... .......G.........G............G....... ........................T........... ...AA.........A................. .....T.....A............ ...Y.......G............ ............ ............A.....C       19     15 ,     19     15     124:>A/Managua/1054.02/2009/08/16      
 125 >A/Managua/791.03/2009/06/25       .......A....................C.......... .......G.........G............G....... ........................T........... ...AA.........A................. .....T.....A............ ...........G............ ............ ............A.....C       14     14 ,     14     14     125:>A/Managua/791.03/2009/06/25       
 126 >A/Managua/2604.02/2009/08/07      .......A....................C.......... .......G.........G............G....... ........................T........... ...AA.........A........A........ .....T.....A............ ...........G............ ............ ............A.....C       21     15 ,     21     15     126:>A/Managua/2604.02/2009/08/07      
 127 >A/Managua/3467.01/2009/07/24      .......A....................C.......... .......G.........G............G....... ........................T........... ...AA.........A........A........ .....T.....A............ ...........G............ ............ ............A.....C       17     15 ,     17     15     127:>A/Managua/3467.01/2009/07/24      
 128 >A/Managua/4209.04/2009/08/28      .......A....................C.......... .......G.........G............G....... ........................T........... ...AA.........A................. .....T.....A............ ...........G............ ............ ............A.....C       20     14 ,     20     14     128:>A/Managua/4209.04/2009/08/28      
 129 >A/Managua/3275.01/2009/08/15      .......A....................C.......... .......G.........G............G....... ........................T........... ...AA.........A................. .....T.....A............ ...........G............ ............ ............A.....C       21     14 ,     21     14     129:>A/Managua/3275.01/2009/08/15      
 130 >A/Managua/2958.01/2009/09/02      .......A....................C.......... .......G.........G............G....... ........................T........... ...AA.........A................. .....T.....A............ ...........G............ ............ ............A.....C       17     14 ,     17     14     130:>A/Managua/2958.01/2009/09/02      
 131 >A/Managua/5235.03/2009/07/02      .......A....................C.......... .......G.........G............G....... ........................T........... ...AA.........A................. .....TC....A............ ...........G............ ............ ............A.....C       17     15 ,     17     15     131:>A/Managua/5235.03/2009/07/02      
 132 >A/Managua/5953.01/2009/09/08      .......A....................C.......... .......G.........G............G....... ........................T........... ...AA.........A................. .....TC....A............ ...........G............ ............ ............A.....C       16     15 ,     16     15     132:>A/Managua/5953.01/2009/09/08      
 133 >A/Managua/4186.02/2009/08/12      .......A....................C.......... .......G.........G............G....... ......................A.T........... ...AA.........A................. .....T.A...A............ ...........G........T... ............ ............A.....C       21     17 ,     21     17     133:>A/Managua/4186.02/2009/08/12      
 134 >A/Managua/5595.03/2009/08/08      .......A....................C.......... .......G.........G............G....... ......................A.T........... ...AA.........A................. .....T.A...A............ ...........G........T... ............ ............A.....C       21     17 ,     21     17     134:>A/Managua/5595.03/2009/08/08      
                                                                                                                                                                                                                                                                                
---Index--------------------------------CAGATACGGCTGATCGGCAACGCAAGGGAAAGCGCGCCG TCATCAAAGGCGGCTGGACTTACACCGAAGAAGCGACA AGTGTACTTCGACCCTGCAGGAGGCAGTTGATTACG CGACGTTTGCAGATGTCTATGCAGGCACTGCG CCCAGCAGTAAGTGTAGGCGAGCG CTACAATCGCAAAAATCAGGCCGA CACCCTGGGTAT GTCTGGAAAGCAGAGGACA 
-codon-position-------------------------2 12  1            1     12 1 2      1  2  1  1          21  1 1     11    11  2  111    221 11   112 2        11   2 112  2 1  112     21  1     11 2  21  1  1   1   1      221111221 11 1        2            11     11  1 1  121 1  
                                        000000000000000111111111111111111111222 00000000000000000111111111111112222222 000000000000000000011111111111111222 00000000000000000001111111111111 000000000000000011111111 000000000000000000011111 000000000000 0000000000000000000 
                                        001444455568999001111222334555577779001 00111123345677779011233346667790111222 000133456667777888900001244556789001 00111233445556688890000112233344 011223333677889901111222 001111123446678889901113 011134456688 0001111112233346666 
                                        699115646738258174556678233026745782476 39114700587712791508704720292408699357 058814052376799058702558668267094895 47448123361335657732339274800908 434692455399148990348459 241123651783743480313589 100958950605 1570358893936640446 
                                        263016064995474776891951906929732350613 53127150469873152855837588928195303071 871733521641589822297564348761798341 18255018506188526969162212125586 421087257938662627532843 642846176171524653974842 528243250353 8122976907866734233

**mixin** · April 18, 2011, 08:43 AM

Re: Sequences at Genbank!

Looking at the Genbank InDRe/Chihuahua and the GISAID CDC/US sequences, I aligned the last large submission from the CDC and found a very distinct group of 12 sequences. I deleted the mutations they all shared and what I'm seeing is one-loosely defined clade and one very well-defined clade.

After the alignment, I wanted to see if the Chihuahua sequences were similar, so I took out all the commonly shared mutations from those, too.

For discussion purposes, I'll consider the loosely-defined group chi1 and the well-defined group chi2.

Chi1 only appears in the US and shares these mutations: G16A, C473A, G1400A, G1546A

Chi2 appears in the US and Mexico. The 3 full InDRE/1945,46,47 sequences and 5 from the US share mutations: C135T, G207A, T462A, A489C, A1215G.

I'm currently searching for any sequences collected before Jan. 2011 that share any 2 or more of these mutations.

Since I have no scientific background, I welcome anyone to double checking my findings.

**gsgs** · April 19, 2011, 11:33 PM

Re: Sequences at Genbank!

Thailand pH1N1 HA , all mutations

Code:

                                                00000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000011111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111 
                                                00000000000000000000000000000000000000011111111111111111111111111111111111111111111222222222222222222222222333333333333333333333333333444444444444444444444444444445555555555555555555555555555555566666666666666666666666666666666667777777777777777777777777888888888888888888888888888888888888899999999999999999999999999900000000000000000000000000111111111111111111111111122222222222222222222222233333333333333333333334444444444444444444444555555555555555555555666666666666666666666666677 
                                                00111222222333334444444566677777888999900001111222222244444455556666777788888889999122344455566666667788999000001123334445556667788999001111222333445566777788899990001111122334444555556666677899900000112222344555666677778889999990001111122233334555556779000001112222333344555556677777888899900012233344445567778889999900011111223344455566788899001111224446677777889999901113344445666667788999900112245566666788889990012233444566677888899001111223344566677789122355667778888899999999900 
                                                46136124689246790234578834923478124068925693679013458901245804892358124701356890239058203927913456892325078012385840280581240375815039890378346235071913457838902352470356957016789235890137837814803578290147502578156914783470567895781467912635688034697373013470362359024769125890503469045817803681403423684532483571346835823467695814736958104628170389250567801269581345762480945896013692512346923130912902358502342453802507039547813256846690258482956703467845004036585782568912345678901 
-codon-position---------------------------------1 211 1 21221 1 1 12 2 1 1  122  1   2   1122 2 1 122 2 1 11 12  1   1   1 2 2 1 11   1    21 2 12122   2 1 12 2    221   1   1   1    122 1 1  1 2 1 21 1 1 2 1 1 1    2   22  12  1  12 2 1 1   1  212 12   21 1 112  222 2   2 12  2   2 212 1 1 1  1  22 12 2      1 121    2   121  1  12    1        1 11  1  2 21 1 1 21  12 2               1       2    2  1 12     2 1   2   2  12 1      1 1   1 2   2 1 1  1 2 1 2 21   2       11   1  2  1    12  1   112  22 11    1 122 2 2 12 12 12  
---Index----------------------------------------AGTCGTCGTTACTTGAACGCAATTTATTCACGCATATTACAGCAAGATGAACTATTACCCAGAGTACGACACACAGAGGGAGTTTCAATGTCCCCCACGCGCCCTATTAGTAAGCAATGTGGCAGAAGAAGGTAGACGATCATCTGAAGTCCAAAACAAATTACATAAGATCCAGCATTTGTAGGGAAGCCTCTTTTGGCCAGTCTCGAGGTTGACGAAGAGGACAATACAAGGATAGAGACTTCAAGGGACCCTACGATACGGAAAGTATCTTATACGCTTCTACTTGCAGTTCCAGTAGAAAAAAAACATGCGGCCTGGGTCCGATCATGCCTCAGGGGAACTCTAAGGGCTGTGCGATTAATCTGTGTCGAGACCCAAAAGTATAGTTCGCATACGACCTCCCTGGACTAAGGCACGTCCCACCTAAGATGCTGCCCAACGGACAGGAGCAGGCCTAGGTCCTTTCAGTGATATGTATTTAA 
   1 >A/******/index/2009/02/01                 .....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................        0      0 ,      0      0       1:>A/******/index/2009/02/01                 
   2 >A/Thailand/CU-H122/2009,2009/07/04        -.............................................................................................................................................................................................................................................................................................................................................-------------------------------------------------------------------------------------------------------------------------------------------------------      152    152 ,      0      0       2:>A/Thailand/CU-H122/2009,2009/07/04        
   3 >A/Thailand/CU-H429/2009,2009/08/20        ................................................................................................................................................................................................................................................................................................................................................................................................................................T....................................................................        1      1 ,      1      1       3:>A/Thailand/CU-H429/2009,2009/08/20        
   4 >A/Thailand/CU-H128/2009,2009/07/06        .........................................................................................................................................................................................................................................................................................................T......................................................................................................................T....................................................................        2      2 ,      2      2       4:>A/Thailand/CU-H128/2009,2009/07/06        
   5 >A/Thailand/CU-H132/2009,2009/07/06        .........................................................................................................................................................................................................................................................................................................T......................................................................................................................T....................................................................        2      2 ,      2      2       5:>A/Thailand/CU-H132/2009,2009/07/06        
   6 >A/Thailand/CU-H133/2009,2009/07/06        .........................................................................................................................................................................................................................................................................................................T......................................................................................................................T....................................................................        2      2 ,      2      2       6:>A/Thailand/CU-H133/2009,2009/07/06        
   7 >A/Thailand/CU-H134/2009,2009/07/07        .........................................................................................................................................................................................................................................................................................................T......................................................................................................................T....................................................................        2      2 ,      2      2       7:>A/Thailand/CU-H134/2009,2009/07/07        
   8 >A/Thailand/CU-H139/2009,2009/07/07        .........................................................................................................................................................................................................................................................................................................T......................................................................................................................T....................................................................        2      2 ,      2      2       8:>A/Thailand/CU-H139/2009,2009/07/07        
   9 >A/Thailand/CU-H203/2009,2009/07/13        .........................................................................................................................................................................................................................................................................................................T......................................................................................................................T....................................................................        2      2 ,      2      2       9:>A/Thailand/CU-H203/2009,2009/07/13        
  10 >A/Thailand/CU-H216/2009,2009/07/15        --------------...........................................................................................................................................................................................................................................................................................T......................................................................................................................T.................---------------------------------------------------       67     67 ,      2      2      10:>A/Thailand/CU-H216/2009,2009/07/15        
  11 >A/Thailand/CU-H300/2009,2009/07/26        .........................................................................................................................................................................................................................................................................................................T......................................................................................................................T....................................................................        2      2 ,      2      2      11:>A/Thailand/CU-H300/2009,2009/07/26        
  12 >A/Thailand/CU-H302/2009,2009/07/27        .........................................................................................................................................................................................................................................................................................................T......................................................................................................................T....................................................................        2      2 ,      2      2      12:>A/Thailand/CU-H302/2009,2009/07/27        
  13 >A/Thailand/CU-H393/2009,2009/08/14        .........................................................................................................................................................................................................................................................................................................T......................................................................................................................T....................................................................        2      2 ,      2      2      13:>A/Thailand/CU-H393/2009,2009/08/14        
  14 >A/Thailand/CU-H427/2009,2009/08/19        .........................................................................................................................................................................................................................................................................................................T......................................................................................................................T....................................................................        2      2 ,      2      2      14:>A/Thailand/CU-H427/2009,2009/08/19        
  15 >A/Thailand/CU-H874/2009,2009/11/02        ----------------------------------------------------------------------------------------------------------------------------------------------------------------------...................................................................................................................................T...............................------------------------------------------------------------------------------------------------------------------------------------------------------------      323    323 ,      1      1      15:>A/Thailand/CU-H874/2009,2009/11/02        
  16 >A/Thailand/CU-H243/2009,2009/07/17        ...................................................................................................................................................................................................................A.....................................................................................T......................................................................................................................T....................................................................        3      3 ,      3      3      16:>A/Thailand/CU-H243/2009,2009/07/17        
  17 >A/Thailand/CU-H109/2009,2009/07/03        -..................................................................................................................................................................................................................A.....................................................................................T....................................-------------------------------------------------------------------------------------------------------------------------------------------------------      154    154 ,      2      2      17:>A/Thailand/CU-H109/2009,2009/07/03        
  18 >A/Thailand/CU-H119/2009,2009/07/04        ...................................................................................................................................................................................................................A.....................................................................................T...................................--------------------------------------------------------------------------------------------------------------------------------------------------------      154    154 ,      2      2      18:>A/Thailand/CU-H119/2009,2009/07/04        
  19 >A/Thailand/CU-H130/2009,2009/07/06        ...................................................................................................................................................................................................................A............................................................................................................................................................................................................T....................................................................        2      2 ,      2      2      19:>A/Thailand/CU-H130/2009,2009/07/06        
  20 >A/Thailand/CU-H491/2009,2009/08/01        ...................................................................................................................................................................................................................A............................................................................................................................................................................................................T....................................................................        2      2 ,      2      2      20:>A/Thailand/CU-H491/2009,2009/08/01        
  21 >A/Thailand/CU-H952/2009,2009/11/17        ----------------------------------------------------------------------------------------------------------------------------------------------------------------------.............................................A.....................................................................................................................------------------------------------------------------------------------------------------------------------------------------------------------------------      323    323 ,      1      1      21:>A/Thailand/CU-H952/2009,2009/11/17        
  22 >A/Thailand/CU-H1039/2009,2009/12/01       -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A.....................................................................................................................------------------------------------------------------------------------------------------------------------------------------------------------------------      368    368 ,      1      1      22:>A/Thailand/CU-H1039/2009,2009/12/01       
  23 >A/Thailand/CU-H1065/2009,2009/12/04       -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------....................................A.....................................................................................................................------------------------------------------------------------------------------------------------------------------------------------------------------------      332    332 ,      1      1      23:>A/Thailand/CU-H1065/2009,2009/12/04       
  24 >A/Thailand/CU-H1224/2010,2010/01/13       ----------------------------------------------------------------------------------------------------------------------------------------------------------------------.............................................A.....................................................................................................................------------------------------------------------------------------------------------------------------------------------------------------------------------      323    323 ,      1      1      24:>A/Thailand/CU-H1224/2010,2010/01/13       
  25 >A/Thailand/CU-H1256/2010,2010/01/18       ----------------------------------------------------------------------------------------------------------------------------------------------------------------------.............................................A.....................................................................................................................------------------------------------------------------------------------------------------------------------------------------------------------------------      323    323 ,      1      1      25:>A/Thailand/CU-H1256/2010,2010/01/18       
  26 >A/Thailand/CU-H1301/2010,2010/01/23       ----------------------------------------------------------------------------------------------------------------------------------------------------------------------.............................................A.....................................................................................................................------------------------------------------------------------------------------------------------------------------------------------------------------------      323    323 ,      1      1      26:>A/Thailand/CU-H1301/2010,2010/01/23       
  27 >A/Thailand/CU-H1310/2010,2010/01/25       ----------------------------------------------------------------------------------------------------------------------------------------------------------------------.............................................A.....................................................................................................................------------------------------------------------------------------------------------------------------------------------------------------------------------      323    323 ,      1      1      27:>A/Thailand/CU-H1310/2010,2010/01/25       
  28 >A/Thailand/CU-H1313/2010,2010/01/25       ----------------------------------------------------------------------------------------------------------------------------------------------------------------------.............................................A.....................................................................................................................------------------------------------------------------------------------------------------------------------------------------------------------------------      323    323 ,      1      1      28:>A/Thailand/CU-H1313/2010,2010/01/25       
  29 >A/Thailand/CU-H1351/2010,2010/01/28       ----------------------------------------------------------------------------------------------------------------------------------------------------------------------.............................................A.....................................................................................................................------------------------------------------------------------------------------------------------------------------------------------------------------------      323    323 ,      1      1      29:>A/Thailand/CU-H1351/2010,2010/01/28       
  30 >A/Thailand/CU-H104/2009,2009/07/02        ...................................................................................................................................................................................................................A.....................................................G......................................................................................................................................................T....................................................................        3      3 ,      3      3      30:>A/Thailand/CU-H104/2009,2009/07/02        
  31 >A/Thailand/CU-H75/2009,2009/06/30         ...................................................................................................................................................................................................................A.....................................................G....................................................................-------------------------------------------------------------------------------------------------------------------------------------------------------      153    153 ,      2      2      31:>A/Thailand/CU-H75/2009,2009/06/30         
  32 >A/Thailand/CU-H88/2009,2009/07/01         ...................................................................................................................................................................................................................A.....................................................G...................................................................--------------------------------------------------------------------------------------------------------------------------------------------------------      154    154 ,      2      2      32:>A/Thailand/CU-H88/2009,2009/07/01         
  33 >A/Thailand/CU-H126/2009,2009/07/06        ...................................................................................................................................................................................................................A.....................................................G...................................................................--------------------------------------------------------------------------------------------------------------------------------------------------------      154    154 ,      2      2      33:>A/Thailand/CU-H126/2009,2009/07/06        
  34 >A/Thailand/CU-H140/2009,2009/07/07        ...................................................................................................................................................................................................................A.....................................................G......................................................................................................................................................T....................................................................        3      3 ,      3      3      34:>A/Thailand/CU-H140/2009,2009/07/07        
  35 >A/Thailand/CU-H143/2009,2009/07/07        ...................................................................................................................................................................................................................A.....................................................G......................................................................................................................................................T................................------------------------------------       39     39 ,      3      3      35:>A/Thailand/CU-H143/2009,2009/07/07        
  36 >A/Thailand/CU-H199/2009,2009/07/13        ...................................................................................................................................................................................................................A.....................................................G......................................................................................................................................................T....................................................................        3      3 ,      3      3      36:>A/Thailand/CU-H199/2009,2009/07/13        
  37 >A/Thailand/CU-H313/2009,2009/07/29        ...................................................................................................................................................................................................................A.....................................................G......................................................................................................................................................T....................................................................        3      3 ,      3      3      37:>A/Thailand/CU-H313/2009,2009/07/29        
  38 >A/Thailand/CU-H88/2009,2009/08/           ...................................................................................................................................................................................................................A.....................................................G......................................................................................................................................................T....................................................................        3      3 ,      3      3      38:>A/Thailand/CU-H88/2009,2009/08/           
  39 >A/Thailand/CU-H137/2009,2009/07/07        ...................................................................................................................................................................................................................A.....................................................G.............................................................C........................................................................................T....................................................................        4      4 ,      4      4      39:>A/Thailand/CU-H137/2009,2009/07/07        
  40 >A/Thailand/THB0389/2009,2009/07/13        ...................................................................................................................................................................................................................A.....................................................G..........................................................................................................................A...........................T....................................................................        4      4 ,      4      4      40:>A/Thailand/THB0389/2009,2009/07/13        
  41 >A/Thailand/THB0411/2009,2009/07/16        ...................................................................................................................................................................................................................A.....................................................G..........................................................................................................................A...........................T....................................................................        4      4 ,      4      4      41:>A/Thailand/THB0411/2009,2009/07/16        
  42 >A/Thailand/THB0421/2009,2009/07/20        ...................................................................................................................................................................................................................A.....................................................G..........................................................................................................................A...........................T....................................................................        4      4 ,      4      4      42:>A/Thailand/THB0421/2009,2009/07/20        
  43 >A/Thailand/CU-B938/2009,2009/08/          G..................................................................................................................................................................................................................A.....................................................G..........................................................................................................................A...........................T...............................................................-----       10     10 ,      5      5      43:>A/Thailand/CU-B938/2009,2009/08/          
  44 >A/swine/Thailand/CU-RA9/2009,2009/11/     ...................................................................................................................................................................................................................A.....................................................G.....................................................................................................................A....A...........................T....................................................................        5      5 ,      5      5      44:>A/swine/Thailand/CU-RA9/2009,2009/11/     
  45 >A/Thailand/THB0408/2009,2009/07/15        .........................................................................................A.........................................................................................................................A..................G..................................G..........................................................................................................................A...........................T....................................................................        6      6 ,      6      6      45:>A/Thailand/THB0408/2009,2009/07/15        
  46 >A/Thailand/THB0405/2009,2009/07/15        ..C......................................................................................A.........................................................................................................................A..................G..................................G..........................................................................................................................A...........................T....................................................................        7      7 ,      7      7      46:>A/Thailand/THB0405/2009,2009/07/15        
  47 >A/Thailand/CU-H276/2009,2009/07/          ----.....................................................................................A...............................A.........................................................................................A.....................................................G.................................................................................................................C....................................T....................................................................       10     10 ,      6      6      47:>A/Thailand/CU-H276/2009,2009/07/          
  48 >A/Thailand/34-9943/2010,2010/07/14        -------------------------------------------------------------------------------------------------------------------------------....................................................................................A.............................G..............-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------      358    358 ,      2      2      48:>A/Thailand/34-9943/2010,2010/07/14        
  49 >A/Nonthaburi/102/2009,2009//              -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------.G...............................................................................-------------------------------------------------------------------------------------------------------------------------------------      405    405 ,      1      1      49:>A/Nonthaburi/102/2009,2009//              
  50 >A/Thailand/PMKE0009/2009,2009/08/28       ...................................................................................................................................................................................................................A............................................................................................................................................................................................................T.............................................C......................        3      3 ,      3      3      50:>A/Thailand/PMKE0009/2009,2009/08/28       
  51 >A/Thailand/C602/2010,2010/01/26           ...................................................................................................................................................................................................................A..................................................................................................................................................A.........................................................T....................................................................        3      3 ,      3      3      51:>A/Thailand/C602/2010,2010/01/26           
  52 >A/Bangkok/INS428/2010,2010/03/04          .............................................................................................................................................G.................................T...................................A..................................................................................................................................................A.........................................................T....................................................................        5      5 ,      5      5      52:>A/Bangkok/INS428/2010,2010/03/04          
  53 >A/Thailand/CU-H2293/2010,2010/09/02       ----------------------------------------------------------------------......................................................A................G.....................................................................A.........................................................................................................................--------------------------------------------------------------------------------------------------------------------------------------------------------      225    225 ,      3      3      53:>A/Thailand/CU-H2293/2010,2010/09/02       
  54 >A/Thailand/CU-H2079/2010,2010/07/07       ---------------------------------------------------------------------------------------------------------...................A................G.....................................................................A.........................................................................................................................--------------------------------------------------------------------------------------------------------------------------------------------------------      260    260 ,      3      3      54:>A/Thailand/CU-H2079/2010,2010/07/07       
  55 >A/Thailand/CU-H2085/2010,2010/07/07       ------------------------------------------------------------------------------------........................................A................G.....................................................................A...........................................G.............................................................................--------------------------------------------------------------------------------------------------------------------------------------------------------      240    240 ,      4      4      55:>A/Thailand/CU-H2085/2010,2010/07/07       
  56 >A/Thailand/CU-H1786/2010,2010/03/20       ................................................................................................................................................................................................T..................A..................................................................................................................................................A..........................G..............................T....................................................................        5      5 ,      5      5      56:>A/Thailand/CU-H1786/2010,2010/03/20       
  57 >A/Thailand/CU-B2357/2010,2010/04/20       ................................................................................................................................................................................................T..................A..................................................................................................................................................A..........................G..............................T....................................................................        5      5 ,      5      5      57:>A/Thailand/CU-B2357/2010,2010/04/20       
  58 >A/Thailand/CU-H354/2009,2009/08/08        ...................................................................................................................................................................................................................A..............................................................................................C..................T..........................................................................................T....................................................................        4      4 ,      4      4      58:>A/Thailand/CU-H354/2009,2009/08/08        
  59 >A/Thailand/CU-C161/2009,2009/08/26        .........................................................T.........................................................................................................................................................A...............................................................................................................................................................................G............................T....................................................................        4      4 ,      4      4      59:>A/Thailand/CU-C161/2009,2009/08/26        
  60 >A/Thailand/CU-H910/2009,2009/11/09        .........................................................T.........................................................................................................................................................A...............................................................................................................................................................................G............................T....................................................................        4      4 ,      4      4      60:>A/Thailand/CU-H910/2009,2009/11/09        
  61 >A/Thailand/CU-H1222/2010,2010/01/13       .........................................................T.........................................................................................................................................................A...............................................................................................................................................................................G............................T....................................................................        4      4 ,      4      4      61:>A/Thailand/CU-H1222/2010,2010/01/13       
  62 >A/Thailand/CU-H847/2009,2009/10/26        .........................................................T.........................................................................................................................................................A...............................................................................................................................................................................G.........A..................T....................................................................        5      5 ,      5      5      62:>A/Thailand/CU-H847/2009,2009/10/26        
  63 >A/Thailand/CU-H982/2009,2009/11/23        ----------------------------------------------------------------------------------------------------------------------------------------------------------------------.............................................A...............................................................................................................A.....------------------------------------------------------------------------------------------------------------------------------------------------------------      324    324 ,      2      2      63:>A/Thailand/CU-H982/2009,2009/11/23        
  64 >A/Thailand/H1255/2010,2010/01/18          ...................................................................................................................................................................................................................A.........................................T...............................................................A.....................................................................G............................T....................................................................        5      5 ,      5      5      64:>A/Thailand/H1255/2010,2010/01/18          
  65 >A/Nonthaburi/102/2009,2009/05/            .................................................................................................................................G............................................................................................................................................................................................................................................................G.................................T....................................................................        3      3 ,      3      3      65:>A/Nonthaburi/102/2009,2009/05/            
  66 >A/Thailand/104/2009,2009/05/06            .................................................................................................................................G............................................................................................................................................................................................................................................................G.................................T....................................................................        3      3 ,      3      3      66:>A/Thailand/104/2009,2009/05/06            
  67 >A/Nonthaburi/102/2009,2009//              .................................................................................................................................G............................................................................................................................................................................................................................................................G......................................................................................................        2      2 ,      2      2      67:>A/Nonthaburi/102/2009,2009//              
  68 >A/Nonthaburi/104/2009,2009/05/10          ------------------------------------------------------------------------------------------------------....C......................G................................................................................................................................................................................................................................................-------------------------------------------------------------------------------------------------------------------      219    219 ,      2      2      68:>A/Nonthaburi/104/2009,2009/05/10          
  69 >A/Thailand/CU-H1002/2009,2009/11/26       ----------------------------------------------------------------------------------------------------------------------------------------------------------------------.............................................A.................................G...................................................................................------------------------------------------------------------------------------------------------------------------------------------------------------------      324    324 ,      2      2      69:>A/Thailand/CU-H1002/2009,2009/11/26       
  70 >A/Thailand/CU-H1127/2009,2009/12/19       ----------------------------------------------------------------------------------------------------------------------------------------------------------------------.............................................A...................................A.................................................................................------------------------------------------------------------------------------------------------------------------------------------------------------------      324    324 ,      2      2      70:>A/Thailand/CU-H1127/2009,2009/12/19       
  71 >A/Thailand/CU-H1167/2009,2009/12/30       ----------------------------------------------------------------------------------------------------------------------------------------------------------------------...................................G.........A...................................A.................................................................................------------------------------------------------------------------------------------------------------------------------------------------------------------      325    325 ,      3      3      71:>A/Thailand/CU-H1167/2009,2009/12/30       
  72 >A/Thailand/CU-H106/2009,2009/07/          ......................................................................G............................................................................................................................................A.................................................................................G.A........................................................................................................................T....................................................................        5      5 ,      5      5      72:>A/Thailand/CU-H106/2009,2009/07/          
  73 >A/Thailand/0404-00-N0/2009,2009/07/17     ...................................................................................................................................................................................................................A.................................................................................G.A........................................................................................................................T.........T..........................................................        5      5 ,      5      5      73:>A/Thailand/0404-00-N0/2009,2009/07/17     
  74 >A/Thailand/PMKD0028/2009,2009/09/24       ........................................................................................................C..........................................................................................................A.................................................................................G.A........................................................................................................................T.........TC.........................................................        7      7 ,      7      7      74:>A/Thailand/PMKD0028/2009,2009/09/24       
  75 >A/Thailand/0419-00-N0/2009,2009/06/23     ...A...............................................................A...............................................................................................................................................A.................................................................................G.A........................................................................................................................T....................................................................        6      6 ,      6      6      75:>A/Thailand/0419-00-N0/2009,2009/06/23     
  76 >A/Thailand/34-9913/2010,2010/07/14        --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------.............................A....................A.......................-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------      413    413 ,      2      2      76:>A/Thailand/34-9913/2010,2010/07/14        
  77 >A/Thailand/THB0390/2009,2009/07/13        .........................................A.........................................................................................................................................................................A....................A.......................................................................................................................................................................A...............T....................................................................        5      5 ,      5      5      77:>A/Thailand/THB0390/2009,2009/07/13        
  78 >A/Thailand/CU-C1192/2010,2010/09/15       -------------------------------------------.........................................................................T................................................................................C.............A.........................................................................................................................--------------------------------------------------------------------------------------------------------------------------------------------------------      198    198 ,      3      3      78:>A/Thailand/CU-C1192/2010,2010/09/15       
  79 >A/Thailand/CU-C1151/2010,2010/09/07       --------------------------------------------------------------------------------....................................T................................................................................C.............A..........................................................................................................................-------------------------------------------------------------------------------------------------------------------------------------------------------      234    234 ,      3      3      79:>A/Thailand/CU-C1151/2010,2010/09/07       
  80 >A/Thailand/34-9912/2010,2010/07/14        ----------------------------------------------------------------------------------------------------------------------------------...................................................................C.........A...A............................................-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------      362    362 ,      3      3      80:>A/Thailand/34-9912/2010,2010/07/14        
  81 >A/Thailand/CU-H2364/2010,2010/09/09       ------------------------------------------------------------------------------------------------------------------------------------.......................G.........................................C.........A...A.........................................................................................................................--------------------------------------------------------------------------------------------------------------------------------------------------------      288    288 ,      4      4      81:>A/Thailand/CU-H2364/2010,2010/09/09       
  82 >A/Thailand/CU-C1070/2010,2010/08/18       -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------................C.........A...A.......................A.................................................................................................--------------------------------------------------------------------------------------------------------------------------------------------------------      337    337 ,      4      4      82:>A/Thailand/CU-C1070/2010,2010/08/18       
  83 >A/Thailand/CU-C1006/2010,2010/07/22       --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------.....A.......................A................................................G..................................................------------------------------------------------------------------------------------------------------------------------------------------------------      359    359 ,      3      3      83:>A/Thailand/CU-C1006/2010,2010/07/22       
  84 >A/Thailand/CU-C1025/2010,2010/07/29       -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------....................A.......................A................................................G................................................--------------------------------------------------------------------------------------------------------------------------------------------------------      346    346 ,      3      3      84:>A/Thailand/CU-C1025/2010,2010/07/29       
  85 >A/Thailand/CU-H567/2009,2009/09/02        ...............................................................................................................G...................................................................................................A..........................................................C.................................................................................................................................................T...............................................T....................        5      5 ,      5      5      85:>A/Thailand/CU-H567/2009,2009/09/02        
  86 >A/Bangkok/INS424/2010,2010/02/23          .........................................................................................................................................................................................C..................T......A.............................................................................................................A..............................................................................................T....................................................................        5      5 ,      5      5      86:>A/Bangkok/INS424/2010,2010/02/23          
  87 >A/Thailand/CU-B5/2009,2009/06/13          G........................................................................................................................................................................................................................................................................................................T...........................................G..........................................................................T....................................................................        4      4 ,      4      4      87:>A/Thailand/CU-B5/2009,2009/06/13          
  88 >A/Thailand/0316-00-N0/2009,2009/06/23     G........................................................................................................................................................................................................................................................................................................T...........................................G..........................................................................T....................................................................        4      4 ,      4      4      88:>A/Thailand/0316-00-N0/2009,2009/06/23     
  89 >A/Thailand/CU-H85/2009,2009/07/01         G........................................................................................................................................................................................................................................................................................................T...................................--------------------------------------------------------------------------------------------------------------------------------------------------------      154    154 ,      2      2      89:>A/Thailand/CU-H85/2009,2009/07/01         
  90 >A/Thailand/THB0402/2009,2009/07/15        G........................................................................................................................................................................................................................................................................................................T...........................................G..........................................................................T....................................................................        4      4 ,      4      4      90:>A/Thailand/THB0402/2009,2009/07/15        
  91 >A/Thailand/THB0415/2009,2009/07/16        G........................................................................................................................................................................................................................................................................................................T...........................................G..........................................................................T....................................................................        4      4 ,      4      4      91:>A/Thailand/THB0415/2009,2009/07/16        
  92 >A/Thailand/THB0420/2009,2009/07/20        G........................................................................................................................................................................................................................................................................................................T...........................................G..........................................................................T....................................................................        4      4 ,      4      4      92:>A/Thailand/THB0420/2009,2009/07/20        
  93 >A/Thailand/THB0434/2009,2009/07/27        G........................................................................................................................................................................................................................................................................................................T...........................................G..........................................................................T....................................................................        4      4 ,      4      4      93:>A/Thailand/THB0434/2009,2009/07/27        
  94 >A/Thailand/THB0444/2009,2009/07/29        G........................................................................................................................................................................................................................................................................................................T...........................................G..........................................................................T....................................................................        4      4 ,      4      4      94:>A/Thailand/THB0444/2009,2009/07/29        
  95 >A/Thailand/THB0472/2009,2009/08/07        G........................................................................................................................................................................................................................................................................................................T...........................................G..........................................................................T....................................................................        4      4 ,      4      4      95:>A/Thailand/THB0472/2009,2009/08/07        
  96 >A/Thailand/THB0419/2009,2009/07/20        G..................................................................................................................................................................................................................................................................................................A.....T...........................................G..........................................................................T....................................................................        5      5 ,      5      5      96:>A/Thailand/THB0419/2009,2009/07/20        
  97 >A/Thailand/THB0427/2009,2009/07/22        G..................................................................................................................................................................................................................................................................................................A.....T...........................................G..........................................................................T....................................................................        5      5 ,      5      5      97:>A/Thailand/THB0427/2009,2009/07/22        
  98 >A/Thailand/THB0428/2009,2009/07/22        G..................................................................................................................................................................................................................................................................................................A.....T...........................................G..........................................................................T....................................................................        5      5 ,      5      5      98:>A/Thailand/THB0428/2009,2009/07/22        
  99 >A/Thailand/THB0454/2009,2009/08/03        G..................................................................................................................................................................................................................................................................................................A.....T...........................................G..........................................................................T....................................................................        5      5 ,      5      5      99:>A/Thailand/THB0454/2009,2009/08/03        
 100 >A/Thailand/THB0433/2009,2009/07/27        G..................................................................................................................................................................................................................................................................................................A.....T...........................................G..........................................................A...............T....................................................................        6      6 ,      6      6     100:>A/Thailand/THB0433/2009,2009/07/27        
 101 >A/Thailand/THB0435/2009,2009/07/28        G........................................................................................................................................................................G...............................................................................................................................T...........................................G..........................................................................T....................................................................        5      5 ,      5      5     101:>A/Thailand/THB0435/2009,2009/07/28        
 102 >A/Thailand/0445-00-N0/2009,2009/07/30     G........................................................................................................................................................................G...............................................................................................................................T...........................................G..........................................................................T....................................................................        5      5 ,      5      5     102:>A/Thailand/0445-00-N0/2009,2009/07/30     
 103 >A/Thailand/THB0438/2009,2009/07/28        G........................................................................................................................................................................................................................................................................................................T...........................................G..........................................................................T...............................A....................................        5      5 ,      5      5     103:>A/Thailand/THB0438/2009,2009/07/28        
 104 >A/Thailand/THB0474/2009,2009/08/10        G........................................................................................................................................................................................................................................................................................................T...........................................G............................................................C.............T....................................................................        5      5 ,      5      5     104:>A/Thailand/THB0474/2009,2009/08/10        
 105 >A/Thailand/THA0364/2009,2009/07/22        G............................................................A..........................................................................................................................................................................................A................................................T...........................................G..........................................................................T....................................................................        6      6 ,      6      6     105:>A/Thailand/THA0364/2009,2009/07/22        
 106 >A/Thailand/THB0437/2009,2009/07/28        G............C...........................................................................................................................................................................................................................................................................................T...........................................G..............................................A...........................T....................................................................        6      6 ,      6      6     106:>A/Thailand/THB0437/2009,2009/07/28        
 107 >A/Thailand/THB0442/2009,2009/07/29        G...A.......................................................................................................................................................T............................................................................................................................................T...........................................G..........................................................................T....................................................................        6      6 ,      6      6     107:>A/Thailand/THB0442/2009,2009/07/29        
 108 >A/Thailand/CU-H572/2009,2009/09/03        G......A.................................................................................................................................................................................................................................................................................................T........................................T..G..........................................................................T....................................................................        6      6 ,      6      6     108:>A/Thailand/CU-H572/2009,2009/09/03        
 109 >A/Thailand/PMKD0030/2009,2009/09/25       G.............................................................................................................................................................................................T..........................................................................................................T...........................................G..........................................................................T..................................................................G.        6      6 ,      6      6     109:>A/Thailand/PMKD0030/2009,2009/09/25       
 110 >A/Thailand/CU-H340/2009,2009/08/          --.......................................................................................A...........................................................................................................................................................G...................................................T...........................................G..........................................................................T.............................................-----------------------       30     30 ,      5      5     110:>A/Thailand/CU-H340/2009,2009/08/          
 111 >A/swine/Thailand/CU-SA43/2010,2010/02/    G........................................................................................................................................................................................................................................................................................................T........................................A..G..........................................................................T...........................................A................A-------       14     14 ,      7      7     111:>A/swine/Thailand/CU-SA43/2010,2010/02/    
 112 >A/swine/Thailand/CU-SA412/2010,2010/04/   -----....................................................................................................................................................................................................................................................................................................T........................................A..G..C....................................................................G..T..........................................CA.....-------------------       32     32 ,      8      8     112:>A/swine/Thailand/CU-SA412/2010,2010/04/   
 113 >A/swine/Thailand/CU-SA432/2010,2010/04/   -------....................................................................A.............................................................................................................................................................................................................................T........................................A..G.......................................................................G..T..........................................CA..........--------------       29     29 ,      8      8     113:>A/swine/Thailand/CU-SA432/2010,2010/04/   
 114 >A/Thailand/CU-H94/2009,2009/07/02         ...................................................................................................................................................................................................................A.................................................................................C...T.............................C......-------------------------------------------------------------------------------------------------------------------------------------------------------      155    155 ,      4      4     114:>A/Thailand/CU-H94/2009,2009/07/02         
 115 >A/Thailand/34-9936/2010,2010/07/14        ----------------------------------------------------------------------------------------------------------------------------------...........G.....................................................................AC...........................................-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------      362    362 ,      3      3     115:>A/Thailand/34-9936/2010,2010/07/14        
 116 >A/Thailand/PMKSV0305/2009,2009/08/02      ......................................................C..............................................................................................................................................................A...................................................................................T...........................................G..........................................................................T....................................................................        5      5 ,      5      5     116:>A/Thailand/PMKSV0305/2009,2009/08/02      
 117 >A/Thailand/THB0423/2009,2009/07/21        G............................................................................................................................................................................................................................................................................................A.....T.....T......................................................................................................................T.......................C............................................        6      6 ,      6      6     117:>A/Thailand/THB0423/2009,2009/07/21        
 118 >A/Thailand/0440-00-N0/2009,2009/07/29     G................................................G........A...................................................................................................................................................................A.......................................A..................................T......................A....................G..........................................................................T....................................................................        9      9 ,      9      9     118:>A/Thailand/0440-00-N0/2009,2009/07/29     
 119 >A/swine/Thailand/CU-RA15/2010,2010/01/    ------.............................................................................................................................................................................................................A.....................................................G............................................................................G.............................................A...........................T..................C.............................................----       16     16 ,      6      6     119:>A/swine/Thailand/CU-RA15/2010,2010/01/    
 120 >A/swine/Thailand/CU-RA114/2010,2010/01/   -----..............................................................................................................................................................................................................A.....................................................G............................................................................G.............................................A.C.........................T..................C............................................-----       17     17 ,      7      7     120:>A/swine/Thailand/CU-RA114/2010,2010/01/   
 121 >A/swine/Thailand/CU-RA75/2010,2010/01/    --...................................................................................................................................................................................................C.............A.....................................................G............................................................................G.............................................A...........................T..................C..............................................---       12     12 ,      7      7     121:>A/swine/Thailand/CU-RA75/2010,2010/01/    
 122 >A/Thailand/34-9937/2010,2010/07/14        -----------------------------------------------------------------------------------------------------------------------------------.........................................A........................C.............A............................................-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------      363    363 ,      3      3     122:>A/Thailand/34-9937/2010,2010/07/14        
 123 >A/Thailand/CU-C1119/2010,2010/09/01       ---------------------------------------------------------------------------------------------------------............................................................................................C.............A......................................................................................................A..................--------------------------------------------------------------------------------------------------------------------------------------------------------      260    260 ,      3      3     123:>A/Thailand/CU-C1119/2010,2010/09/01       
 124 >A/Thailand/CU-C1099/2010,2010/08/25       --------------------------...............................T...........................................................................................................................................C.........A...A.........................................................................................................................--------------------------------------------------------------------------------------------------------------------------------------------------------      182    182 ,      4      4     124:>A/Thailand/CU-C1099/2010,2010/08/25       
 125 >A/Thailand/CU-H2216/2010,2010/08/21       ---------------------....................................T...................T.............................................................................G.........................................C.........A...A...............C.........................................................................................................--------------------------------------------------------------------------------------------------------------------------------------------------------      180    180 ,      7      7     125:>A/Thailand/CU-H2216/2010,2010/08/21       
 126 >A/Thailand/CU-H2359/2010,2010/09/09       -------------------------------------------------------------------------------------------------------------------------------------................................................................C.........A...A.....................................................G...........................................................T.......--------------------------------------------------------------------------------------------------------------------------------------------------------      290    290 ,      5      5     126:>A/Thailand/CU-H2359/2010,2010/09/09       
 127 >A/Thailand/THB0441/2009,2009/07/28        ....................................................................................................A..............................................................................................................A.....................................................G..........................................................................................................................A...........................T.............A......................................................        6      6 ,      6      6     127:>A/Thailand/THB0441/2009,2009/07/28        
 128 >A/swine/Thailand/CU-RA29/2009,2009/12/    ............................................................................................................................A......................................................................................A.....................................................G...............................A..........................................................................................A...........................T..................C.............A...................................        8      8 ,      8      8     128:>A/swine/Thailand/CU-RA29/2009,2009/12/    
 129 >A/swine/Thailand/CU-RA4/2009,2009/11/     ...................................................................................................................................................................................................................A........................G............................G................................................AA..........................G.............................T...............A...........................T..................C.................................................       10     10 ,     10     10     129:>A/swine/Thailand/CU-RA4/2009,2009/11/     
 130 >A/Thailand/ST_0112_1/2010,2010/10/        ---------------------------------------------------------------------------------------------------------------------------------...................A.............................................C................A.....................------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------      384    384 ,      3      3     130:>A/Thailand/ST_0112_1/2010,2010/10/        
 131 >A/Thailand/ST_0111/2010,2010/10/          ---------------------------------------------------------------------------------------------------------------------------------------------.......A.............................................C................A.--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------      416    416 ,      3      3     131:>A/Thailand/ST_0111/2010,2010/10/          
 132 >A/Thailand/ST_0153/2010,2010/10/          -----------------------------------------------------------------------------------------------------------------------------------------...........A.............................................C................A............---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------      401    401 ,      3      3     132:>A/Thailand/ST_0153/2010,2010/10/          
 133 >A/Thailand/ST_0113/2010,2010/10/          --------------------------------------------------------------------------------------------------------------------------------------..............A.............................................C................A..................................................................................-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------      328    328 ,      3      3     133:>A/Thailand/ST_0113/2010,2010/10/          
 134 >A/Thailand/CU-H2301/2010,2010/09/02       -----------------------------------------------------------------------------------------...........................................................A.............................................C................A.........................................................................................................................--------------------------------------------------------------------------------------------------------------------------------------------------------      244    244 ,      3      3     134:>A/Thailand/CU-H2301/2010,2010/09/02       
 135 >A/Thailand/CU-H2295/2010,2010/09/02       -----------------------------------------------------------------------------------.................................................................A.........................A...................C................A.................................................................................................T.......................--------------------------------------------------------------------------------------------------------------------------------------------------------      240    240 ,      5      5     135:>A/Thailand/CU-H2295/2010,2010/09/02       
 136 >A/Thailand/SN_0112_2/2010,2010/10/        ---------------------------------------------------------------------------------------------------------------------------------...................A.............................................C................A..............................C.......-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------      368    368 ,      4      4     136:>A/Thailand/SN_0112_2/2010,2010/10/        
 137 >A/Thailand/CU-H1782/2010,2010/03/14       -----------------------------------------------------------------------------------...............................................................................................................................AA...................................................................A.....................................................--------------------------------------------------------------------------------------------------------------------------------------------------------      238    238 ,      3      3     137:>A/Thailand/CU-H1782/2010,2010/03/14       
 138 >A/Thailand/CU-H1774/2010,2010/03/18       -----------------------------------------------------------------------------------------------------.............................A...............................................................................AA...................................................................A.....................................................--------------------------------------------------------------------------------------------------------------------------------------------------------      257    257 ,      4      4     138:>A/Thailand/CU-H1774/2010,2010/03/18       
 139 >A/Thailand/CU-H1379/2010,2010/01/01       ----------------------------------------------------------------------------------------------------------------------------------------------------------------------.............................................A......................................................................................C..............................------------------------------------------------------------------------------------------------------------------------------------------------------------      324    324 ,      2      2     139:>A/Thailand/CU-H1379/2010,2010/01/01       
 140 >A/Thailand/CU-H1340/2010,2010/01/27       ----------------------------------------------------------------------------------------------------------------------------------------------------------------------.............................................A......................................................................................C..............................------------------------------------------------------------------------------------------------------------------------------------------------------------      324    324 ,      2      2     140:>A/Thailand/CU-H1340/2010,2010/01/27       
 141 >A/Thailand/CU-H1392/2010,2010/01/30       ----------------------------------------------------------------------------------------------------------------------------------------------------------------------.............................................A......................................................................................C..............................------------------------------------------------------------------------------------------------------------------------------------------------------------      324    324 ,      2      2     141:>A/Thailand/CU-H1392/2010,2010/01/30       
 142 >A/Thailand/CU-H1210/2010,2010/01/09       ----------------------------------------------------------------------------------------------------------------------------------------------------------------------.....................G.......................A.....................................................................................................................------------------------------------------------------------------------------------------------------------------------------------------------------------      324    324 ,      2      2     142:>A/Thailand/CU-H1210/2010,2010/01/09       
 143 >A/Thailand/CU-C1005/2010,2010/07/22       --------------------------.......................................G......................................................A...................................................................A......................A........................................................................G...................................................-----------------------------------------------------------------------------------------------------------------------------------------------------      180    180 ,      5      5     143:>A/Thailand/CU-C1005/2010,2010/07/22       
 144 >A/Thailand/CU-C1028/2010,2010/08/05       --------------------------.......................................G......................................................A...................................................................A......................A........................................................................G................................................--------------------------------------------------------------------------------------------------------------------------------------------------------      183    183 ,      5      5     144:>A/Thailand/CU-C1028/2010,2010/08/05       
 145 >A/Thailand/CU-H2417/2010,2010/09/13       .............A...................................................G......................................................A...................................................................A......................A........................................................................G.........................................................................A.........................................................T....................................................................        8      8 ,      8      8     145:>A/Thailand/CU-H2417/2010,2010/09/13       
 146 >A/Bangkok/INS427/2010,2010/03/04          .................A.................................................................................................................................................................................................A...T...........................C..................................................................................................................A.........................................................T.......................C.........G..................................        8      8 ,      8      8     146:>A/Bangkok/INS427/2010,2010/03/04          
 147 >A/Thailand/H1818/2010,2010/03/29          ..................A.....................................................................C................................................A...............................................................G.........A...T...........................C..............................................G...................................................................A......A..................................................T.......................C.........G..................................       13     13 ,     13     13     147:>A/Thailand/H1818/2010,2010/03/29          
 148 >A/Thailand/CU-H2389/2010,2010/09/10       ....................................................................................................................T................................................................................C.............A..........................................................................................................................C.......................A........................................................AT........T...........................................................        8      8 ,      8      8     148:>A/Thailand/CU-H2389/2010,2010/09/10       
 149 >A/Thailand/CU-H2283/2010,2010/08/31       ...............................................................A....................................................T................................................................................C.........A...A..........................................................................................................................C.......................A........................................................AT....................................................................        9      9 ,      9      9     149:>A/Thailand/CU-H2283/2010,2010/08/31       
 150 >A/Thailand/CU-C1157/2010,2010/09/07       .........................................................T...........................................................................................................................................C.........A...A..........................................................................................................................C.......................A........................................................AT....T.........................................T.....................       10     10 ,     10     10     150:>A/Thailand/CU-C1157/2010,2010/09/07       
 151 >A/Thailand/CU-H2358/2010,2010/09/08       .........................................................T...........................................................................................................................................C.........A...A..........................................................................................................................C.......................A........................................................AT....T.........................................T.....................       10     10 ,     10     10     151:>A/Thailand/CU-H2358/2010,2010/09/08       
 152 >A/Thailand/CU-H2543/2010,2010/09/25       .........................................................T...........................................................................................................................................C.........A...A..........................................................................................................................C.......................A........................................................AT....T.........................................T.....................       10     10 ,     10     10     152:>A/Thailand/CU-H2543/2010,2010/09/25       
 153 >A/Thailand/CU-B4148/2010,2010/10/09       .........................................................................................................................................................................G...........................C.........A...A..........................................................................................................................C.......................A........................................................AT....T.........................................T.....................       10     10 ,     10     10     153:>A/Thailand/CU-B4148/2010,2010/10/09       
 154 >A/Thailand/CU-H2548/2010,2010/09/27       .....................................................................................................................................................................................................C.........A...A...................................................................T......................................................C....A..................A........................................................AT....T.........................................T.....................       11     11 ,     11     11     154:>A/Thailand/CU-H2548/2010,2010/09/27       
 155 >A/Thailand/CU-H2698/2010,2010/11/03       ...........................C.............................T.................................................................................................G.........................................C.........A...A..........................................................................................................................C.......................A........................................................AT....T.........................................T.....................       12     12 ,     12     12     155:>A/Thailand/CU-H2698/2010,2010/11/03       
 156 >A/Thailand/CU-B4339/2010,2010/11/04       .........................................................T.................................................................................................G.........................................C.........A...A..........................................................................................................................C.......................A....................................................C...AT....T.........................................T.....................       12     12 ,     12     12     156:>A/Thailand/CU-B4339/2010,2010/11/04       
 157 >A/Thailand/CU-H2911/2011,2011/01/20       ......A..................................................T............................................................................A....................G.........................................C.........A...A..........................................................................................................................C.......................A........................................................AT....T.........................................T.....................       13     13 ,     13     13     157:>A/Thailand/CU-H2911/2011,2011/01/20       
 158 >A/Thailand/CU-H2176/2010,2010/08/17       ...................................................................................................................................................................................................................A...............C........................T.................................................................................C................................................................................AT....T.........................................T.....................        8      8 ,      8      8     158:>A/Thailand/CU-H2176/2010,2010/08/17       
 159 >A/Thailand/CU-H9/2009,2009/06/17          .....................................A.........................................A.........A.........................................................................................................................A.......................................T.............G............................T.............................................................................................A...........................T....................................................................        9      9 ,      9      9     159:>A/Thailand/CU-H9/2009,2009/06/17          
 160 >A/Bangkok/INS426/2010,2010/02/25          .........................................A...................A...................T.................................................................................................................................A..............................................................................................................................AT...............................................G............................T.........................................C..........................        9      9 ,      9      9     160:>A/Bangkok/INS426/2010,2010/02/25          
 161 >A/Thailand/CU-H1140/2009,2009/12/23       ----------------------------------------------------------------------------------------------------------------------------------------------------------------------.......................A.....................A.............................................................................................................A....G..------------------------------------------------------------------------------------------------------------------------------------------------------------      326    326 ,      4      4     161:>A/Thailand/CU-H1140/2009,2009/12/23       
 162 >A/Bangkok/INS425/2010,2010/02/25          .........................................A..............................................................................................................................A............C........................T....A.................................................T.............................................................................................................................G......................T.....T.............................T.....................T................       11     11 ,     11     11     162:>A/Bangkok/INS425/2010,2010/02/25          
 163 >A/Thailand/CU-H1821/2010,2010/03/31       .....................................................................T......................................................A.............................................................................A........A............................................T.....................................................................................................A.............................................T...........T........................................T...........................        9      9 ,      9      9     163:>A/Thailand/CU-H1821/2010,2010/03/31       
 164 >A/swine/Thailand/CU-M8_2/2009,2009/11/    .............................................A.................A.......................................T................................................G..........................................................A.................................................................................G..C.....................C.........................................................T..............................A........T....................................................................       11     11 ,     11     11     164:>A/swine/Thailand/CU-M8_2/2009,2009/11/    
 165 >A/Nonthaburi/102/2009,2009/05/06          ------------------------------------------------------------------------------------------------------...........................G..................................................................................................................................................................................................................................A..G.A---------------------------------------------------------------------------------------------------------------------------      229    229 ,      4      4     165:>A/Nonthaburi/102/2009,2009/05/06          
 166 >A/Thailand/CU-H935/2009,2009/11/13        ----------------------------------------------------------------------------------------------------------------------------------------------------------------------.............................................A........G..............A.....................................................................................AA.G....------------------------------------------------------------------------------------------------------------------------------------------------------------      328    328 ,      6      6     166:>A/Thailand/CU-H935/2009,2009/11/13        
 167 >A/swine/Thailand/CU-RP3/2010,2010/09/     .........C...............................................................T.........C.............................................................................................G................A................A...........G............................................................................................T..A.A....................................A...............................................C.........T...C.........................................-----------------------       37     37 ,     14     14     167:>A/swine/Thailand/CU-RP3/2010,2010/09/     
 168 >A/swine/Thailand/CU-DP83/2010,2010/12/    G........................................................T...........................................................................................................................................C.........A...A........................G.............................G..............................T.........................................A.G.........................................................................AT....T..G......................................T..-------------------       34     34 ,     15     15     168:>A/swine/Thailand/CU-DP83/2010,2010/12/    
 169 >A/Thailand/SN_0116/2010,2010/10/          -----------------------------------------------------------------------------------------------------------------------------------------....................................C...............T.......C.........A...A...................................----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------      380    380 ,      5      5     169:>A/Thailand/SN_0116/2010,2010/10/          
 170 >A/swine/Thailand/CU-PL63/2010,2010/11/    --------------------------.........................................A...............................................................................G.....................G................G................C..............................................................G..............................T.........................................A.G........................................................A.................T.................................................CC....TCA.ATC.C.C..       47     47 ,     21     21     170:>A/swine/Thailand/CU-PL63/2010,2010/11/    
 171 >A/swine/Thailand/CU-PL65/2010,2010/11/    ...................................................................A......................................................................TG.......G.....G.....T..TT......................G................C................................G..........................................................T.........G..G.......................A.C........T..............A.......................................A.................T....................................................................       20     20 ,     20     20     171:>A/swine/Thailand/CU-PL65/2010,2010/11/    
 172 >A/swine/Thailand/CU-SA433/2010,2010/06/   ............................TC.........................................................................................................................................................................G.................................................................................................T........................................A..G.........................................A.............................G..T....................G.....................CA........TAGAT.G.A.T.AA--       24     24 ,     22     22     172:>A/swine/Thailand/CU-SA433/2010,2010/06/   
 173 >A/swine/Thailand/CU-RP1/2010,2010/09/     ...............G.T.TGGG.......GA.G...GG.CT.G..CCAGCTGC.CT..A.............T.........C..............................................................................................................A................A...........G......................................................................................................................................A...............................................C.........T...C................................................................       34     34 ,     34     34     173:>A/swine/Thailand/CU-RP1/2010,2010/09/     
 174 >A/swine/Thailand/CU-PS73/2010,2010/09/    --..TCT.A.GTC.ATG....G.....C...AT..TA.TT....G..........G....G.GAC....T.TG.GA...A.....ACGCA.T.AT..A..ATT....ATAC.GATG.CACA.TG.G..T....GAG.A..T..AAA.G.CAT..C..G..C...GA.G...T..ATG.CCA.GAAA.G.....C....A......C..CAC..C....GA..A.G..C.A.G.A...TC..T..A....TC.T.C..ATC...A.G.T.....G.C..A.AATC....AT.A.....A.GAG..GG.C....AA..T.CA.A.....CT..A.TCT...AA......T..AATAA....GC..GC.AACACTA.AG.T..GG....C....TATG....G.T.T.TC.AC.CG.A..G.A.TAT..T.GTAGCAT.A.TTGGTATG.GA.GATCAAT....T...C..T..C............G      223    223 ,    221    221     174:>A/swine/Thailand/CU-PS73/2010,2010/09/    
 175 >A/swine/Thailand/CU-ST3/2009,2009/11/     .A..TCT...G....CGA.....CCGC....AT.CT..TTCAT......C.........T..GAC.T.G..TC..TG.AAG.CCCAC.C.CTTATTG.ATA.T..G.A.AC.GA...CA.A...A.GA...AC.AGA.....CGAAG..C.T..C..GG..CG..AGG.GCT...TG...A.GAA....TTC..CCCAA.T....C..C....AGTAG.A.AA..TGAG..G..G...CAG...T.G..TC.T.C..A..TT.ATGGCCGCGCAG.GT.T....G.CCA...GC.T....A.TT.G.C..GCAA..T.C..A.A.T..TGCA.TCTGAAAA.G.CTCGGAAAGAAC.TAGC.G......ACT.GA...T.....CGCG.C.T.T.AT---------------------A------------------------------------------------------------------      299    299 ,    212    212     175:>A/swine/Thailand/CU-ST3/2009,2009/11/     
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
---Index----------------------------------------AGTCGTCGTTACTTGAACGCAATTTATTCACGCATATTACAGCAAGATGAACTATTACCCAGAGTACGACACACAGAGGGAGTTTCAATGTCCCCCACGCGCCCTATTAGTAAGCAATGTGGCAGAAGAAGGTAGACGATCATCTGAAGTCCAAAACAAATTACATAAGATCCAGCATTTGTAGGGAAGCCTCTTTTGGCCAGTCTCGAGGTTGACGAAGAGGACAATACAAGGATAGAGACTTCAAGGGACCCTACGATACGGAAAGTATCTTATACGCTTCTACTTGCAGTTCCAGTAGAAAAAAAACATGCGGCCTGGGTCCGATCATGCCTCAGGGGAACTCTAAGGGCTGTGCGATTAATCTGTGTCGAGACCCAAAAGTATAGTTCGCATACGACCTCCCTGGACTAAGGCACGTCCCACCTAAGATGCTGCCCAACGGACAGGAGCAGGCCTAGGTCCTTTCAGTGATATGTATTTAA 
-codon-position---------------------------------1 211 1 21221 1 1 12 2 1 1  122  1   2   1122 2 1 122 2 1 11 12  1   1   1 2 2 1 11   1    21 2 12122   2 1 12 2    221   1   1   1    122 1 1  1 2 1 21 1 1 2 1 1 1    2   22  12  1  12 2 1 1   1  212 12   21 1 112  222 2   2 12  2   2 212 1 1 1  1  22 12 2      1 121    2   121  1  12    1        1 11  1  2 21 1 1 21  12 2               1       2    2  1 12     2 1   2   2  12 1      1 1   1 2   2 1 1  1 2 1 2 21   2       11   1  2  1    12  1   112  22 11    1 122 2 2 12 12 12  
                                                00000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000011111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111111 
                                                00000000000000000000000000000000000000011111111111111111111111111111111111111111111222222222222222222222222333333333333333333333333333444444444444444444444444444445555555555555555555555555555555566666666666666666666666666666666667777777777777777777777777888888888888888888888888888888888888899999999999999999999999999900000000000000000000000000111111111111111111111111122222222222222222222222233333333333333333333334444444444444444444444555555555555555555555666666666666666666666666677 
                                                00111222222333334444444566677777888999900001111222222244444455556666777788888889999122344455566666667788999000001123334445556667788999001111222333445566777788899990001111122334444555556666677899900000112222344555666677778889999990001111122233334555556779000001112222333344555556677777888899900012233344445567778889999900011111223344455566788899001111224446677777889999901113344445666667788999900112245566666788889990012233444566677888899001111223344566677789122355667778888899999999900 
                                                46136124689246790234578834923478124068925693679013458901245804892358124701356890239058203927913456892325078012385840280581240375815039890378346235071913457838902352470356957016789235890137837814803578290147502578156914783470567895781467912635688034697373013470362359024769125890503469045817803681403423684532483571346835823467695814736958104628170389250567801269581345762480945896013692512346923130912902358502342453802507039547813256846690258482956703467845004036585782568912345678901

**gsgs** · April 25, 2011, 06:11 AM

Re: Sequences at Genbank!

Milan, Italy this season:

Code:

                                  000000000000000000000000000000000000011111111111 
                                  011122223333344444455555566666679999900113344466 
                                  947812482344602567703567904569990233615178800725 
                                  142382981302084152821279850857863134326810638693 
-codon-position-------------------1 1 2     1   11 111    12112121   1 1 21  21    
---Index--------------------------GCCAATGTTTGTGGAGTGACGTAATGGTGATGTCTAAGTAGGAGCCGT 
   1 >A/******/index/2009/02/01   ................................................ 
   2 >A/Milan/186,2011/01/26      ...............A........C..A......C...---------- 
   3 >A/Milan/170,2011/01/20      ...............A........C..A......C...---------- 
   4 >A/Milan/121,2011/02/02      ...............A.T..A...C..A....GT.G..---------- 
   5 >A/Milan/210,2011/02/08      ...............A.T..A...C..A....GT.G........T... 
   6 >A/Milan/15,2011/01/11       .....C........G............A............A...T... 
   7 >A/Milan/01,2011/01/04       .....C........G.......C....A..........---------- 
   8 >A/Milan/04,2010/11/29       ..T......A..A.G.......C....A............A...T... 
   9 >A/Milan/05,2010/12/01       ..T......A..A.G.......C....A............A...T... 
  10 >A/Milan/10,2010/12/27       ..T......A..A.G.......C....A............A...T... 
  11 >A/Milan/26,2011/01/18       ..T......A..A.G......C.....A............A...T... 
  12 >A/Milan/03,2010/11/24       ..T......A..A.G.......C....A............A...T.-- 
  13 >A/Milan/10,2011/01/03       ...G...CC...A.G.......C....A..........---------- 
  14 >A/Milan/55,2011/01/17       ...G...CC.A.....A....C.....AAG.T....C..CAA..T... 
  15 >A/Milan/162,2011/01/14      ...G...CC.A.....A....C.....AAG.T....C.---------- 
  16 >A/Milan/40,2011/01/18       ...G...CC.A.....A....C.....AAG.T....C..CAA..T... 
  17 >A/Milan/220,2011/01/20      ...G...CC.A.....A....C.....AAG.T....C.---------- 
  18 >A/Milan/98,2011/01/21       ...G...CC.A.....A....C.....AAG.T....C.---------- 
  19 >A/Milan/124,2011/02/04      ...G...CC.A.....A....C.....AAG.T---------------- 
  20 >A/Milan/35,2011/01/13       ...G...CC.A.....A....C.....AAG.T....C..CAA..T... 
  21 >A/Milan/166,2011/01/17      ...G...CC.A.....A....C.....AAG.T....C.---------- 
  22 >A/Milan/80,2011/01/24       ...G...CC.A.....A....C.....AAG.T....C..CAA..T... 
  23 >A/Milan/99,2011/01/21       ...G...CC.A.....A....C.....AAG.T......---------- 
  24 >A/Milan/84,2011/01/25       ...G...CC.A.....A....C.....AAG.T....C..CAA..T... 
  25 >A/Milan/90,2011/01/26       ...G...CC.A.....A....C.....AAG.T....C..CAA..T.A. 
  26 >A/Milan/75,2011/01/26       ...G...CC.A.....A....C.....AAG.T....C.---------- 
  27 >A/Milan/188,2011/01/27      A..G...CC.A.....A....C.....AAG.T....C..CAA..T... 
  28 >A/Milan/230,2011/02/03      C..G...CC.A.....A....C.....AAG.T....C..CAA..T..- 
  29 >A/Milan/194,2011/01/31      ...G...CC.A.....A....C.....AAG.T....C..CAA..T... 
  30 >A/Milan/213,2011/02/10      ...G...CC.A.....A....C.....AAG.T....C..CAA..T... 
  31 >A/Milan/236,2011/02/19      ...G...CC.A.....A....C.....AAG.T....C..CAA..T... 
  32 >A/Milan/122,2011/01/31      ...G...CC.A.....A....C.....AAG.T....C.---------- 
  33 >A/Milan/237,2011/02/20      ...G...CC.A.....A....C.....AAG.T....C..CAA..T... 
  34 >A/Milan/197,2011/01/31      ...G...CC.A.....A....C.....AAG.T....C.---------- 
  35 >A/Milan/206,2011/02/08      ...G...CC.A.....A....C.....AAG.T....C..--------- 
  36 >A/Milan/88,2011/01/24       ...G...CC.AA....A....C.....AAG.T....C..CAA..T... 
  37 >A/Milan/24,2011/01/14       ...G...CC.AA....A..T.C.....AAG.T....C..CAA..TT.. 
  38 >A/Milan/72,2011/01/21       ...G...CC.AA....A..T.C.....AAG.T....C..CAA..TT.. 
  39 >A/Milan/181,2011/01/28      A..G...CC.A.....A....C.....AAG.T....C...AA..T... 
  40 >A/Milan/184,2011/01/25      .......CC.A.....A....C.....AAG.T....CA---------- 
  41 >A/Milan/235,2011/02/22      ...G...CC.A.....A....C.....AAG.T....C..CAA..T.A. 
  42 >A/Milan/64,2011/01/20       ...G......A..........C.....AAG.T---------------- 
  43 >A/Milan/160,2011/01/11      ...G......A..........C.....AAG.T.....A---------- 
  44 >A/Milan/18,2011/01/11       ....G.A...A..............C.A..........C.A..AT..C 
  45 >A/Milan/163,2011/01/14      ....G.A...A..............C.A..........---------- 
  46 >A/Milan/219,2011/02/13      .T........A..............C.A..........C.A..AT..C 
  47 >A/Milan/198,2011/02/01      ..........A..............C.A....---------------- 
  48 >A/Milan/199,2011/02/01      ..........A......A.....G.C.A..........C.A.GAT... 
  49 >A/Milan/231,2011/02/03      ..........A......A.....G.C.A..........C.A.GAT... 
  50 >A/Milan/209,2011/02/08      ..........A......A.....G.C.A....---------------- 
  51 >A/Milan/159,2011/01/07      ..........A......A.....G.C.A..........---------- 
  52 >A/Milan/218,2011/02/12      ..........A............G.C.A..C.......C.A.GAT... 
  53 >A/Milan/196,2011/02/01      ..........A............G.C.A..C.......C.A.GAT... 
  54 >A/Milan/224,2011/01/31      ..........A............G.C.A..........---------- 
  55 >A/Milan/229,2011/02/03      .T....A......A....G......CAA....---------------- 
  56 >A/Milan/94,2011/01/25       .T...........A....G......CAA..........---------- 
---Index--------------------------GCCAATGTTTGTGGAGTGACGTAATGGTGATGTCTAAGTAGGAGCCGT 
-codon-position-------------------1 1 2     1   11 111    12112121   1 1 21  21    
                                  000000000000000000000000000000000000011111111111 
                                  011122223333344444455555566666679999900113344466 
                                  947812482344602567703567904569990233615178800725 
                                  142382981302084152821279850857863134326810638693

I'd assume there were at least 5 introductions into Milan
the dominant strain (31/55 = 56&#37

has 15 mutations = 7.5 per year
(11/55=20%) from the India/UK - strain with markers 605,1056,1171,1403

none of the Russ,Chi-mutations
Milan/10 looks recombined
--------------------------------------

2,>A/Milan/186,2011/01/26,23-1041,
G451A,T598C,T933C

2,>A/Milan/210,2011/02/08,23-1671,
G451A,G472T,G531A,T598C,A795G,T903G,C921T,A934G,A1 131G,C1464T,G1486A

--------------------------------------------------------

2,>A/Milan/15,2011/01/11,22-1701,
T222C,A424G,G1171A,A1449G

5-6,>A/Milan/04,2010/11/29,22-1701,
C172T,T333A,G360A,A424G,A567C,G1171A

-----------------------------------------------------

30-31,>A/Milan/55,2011/01/17,22-1701,
A183G,T288C,T321C,G340A,T465A,T552C,G665A,A697G,G7 96T,A963C,
A1118C,G1171A,G1380A

--------------------------------------------------------
("India/UK"-strain)

4,>A/Milan/219,2011/02/13,23-1671,C144T,G836A,
G340A,G605C,T1056C,G1171A,G1403A,T1653C

7,>A/Milan/199,2011/02/01,23-1671,G472A
G340A,A579G,G605C,T1056C,G1171A,A1386G,G1403A

---------------------------------------------------------

2,>A/Milan/94,2011/01/25,22-1023,
C144T,G408A,A447G,A478G,G605C,G640A

**gsgs** · April 28, 2011, 03:24 AM

Re: Sequences at Genbank!

pH1 HAs at genbank since July 2010

Code:

                                                  00000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000111111111111111111111111111111111111111 
                                                  00000000011111111111222222222223333333333333344444444444444555555555555555556666666666666777777777778888888889999999999000000001111111122222233333344444445666 
                                                  01246667934444666788011124588990022334445669902334555667789012333455666677990012445678999011112455790033467890023334569011225881345677901223725678800334676255 
                                                  66270342152478368213702829628182314230287060684237013252892267169625357839285701078581078856799849761406950090310345735227036068108512465273597840638079463936 
-codon-position----------------------------------- 112  1 1 1  111 11   22  1   12   2 1        1 1  1   11  1 2 22   21 1  11211 1212   12 12 2 11  1  22 1 12     1   2 1      2   112   1    1    212         
---Index------------------------------------------GGCAATATGCACTCAGGCCAGTAATGTCTGTGTTCATGTGAGGGGGACTAGGATTGAATCACGGACTTAGAGCACTGGGTGTTGGCAATAGATAACGGCGAGAGCGCAAGTCGTACAACAGGTTTGAAACGAGATGAAATTGGTTGAGCTCACCGGTC 
   1 >A/******/index/2009/02/01                   ..............................................................................................................................................................        0      0 ,      0      0       1:>A/******/index/2009/02/01                   
   2 >A/THA/CU-C1192,2010/09/15                   ---------..........................T........................................C.....A.........................................----------------------------------      120     46 ,      3      3       2:>A/THA/CU-C1192,2010/09/15                   
   3 >A/THA/CU-C1151,2010/09/07                   --------------------...............T........................................C.....A.........................................----------------------------------      152     57 ,      3      3       3:>A/THA/CU-C1151,2010/09/07                   
   4 >A/THA/34-9912,2010/07/14                    -------------------------------------------.................................C...A.A..................---------------------------------------------------------      248    103 ,      3      3       4:>A/THA/34-9912,2010/07/14                    
   5 >A/THA/CU-H2364,2010/09/09                   --------------------------------------------............G...................C...A.A.........................................----------------------------------      195     82 ,      4      4       5:>A/THA/CU-H2364,2010/09/09                   
   6 >A/THA/CU-C1070,2010/08/18                   -------------------------------------------------------------------.........C...A.A.........A...............................----------------------------------      239    105 ,      4      4       6:>A/THA/CU-C1070,2010/08/18                   
   7 >A/THA/CU-C1099,2010/08/25                   -------....T................................................................C...A.A.........................................----------------------------------      110     45 ,      4      4       7:>A/THA/CU-C1099,2010/08/25                   
   8 >A/North Carolina/AF21794,2010/12/20         ...........T............................................G...................C...A.A.........................................C.......A..-----------------------       73     30 ,      7      7       8:>A/North Carolina/AF21794,2010/12/20         
   9 >A/North Carolina/AF21795,2011/01/12         ...........T............................................G...................C...A.A.........................................C.......A..-----------------------       73     30 ,      7      7       9:>A/North Carolina/AF21795,2011/01/12         
  10 >A/Korea/AF21787,2011/01/04                  ...........T............................................G...................C...A.A.........................................C.......A..-----------------------       75     30 ,      9      7      10:>A/Korea/AF21787,2011/01/04                  
  11 >A/Mexico/InDRE2409,2011/04/01               -------------------------------------........A..........G...................C...A.A...............------------------------------------------------------------      246    102 ,      5      5      11:>A/Mexico/InDRE2409,2011/04/01               
  12 >A/Milan/94,2011/01/25                       --------...T.................................A...G......G...................C...A.A.........................................----------------------------------      118     49 ,      7      7      12:>A/Milan/94,2011/01/25                       
  13 >A/Milan/229,2011/02/03                      ----.......T.............A...................A..........G...................C...A.A........................---------------------------------------------------      152     62 ,      7      7      13:>A/Milan/229,2011/02/03                      
  14 >A/Mexico/InDRE4274,2011/04/06               -------------------------------------........A..........G...................C...A.A.............A.------------------------------------------------------------      247    103 ,      6      6      14:>A/Mexico/InDRE4274,2011/04/06               
  15 >A/Karaj/5607,2010/12/19                     ...........T............................................G...................C...A.A.........................................C.......A..............AT.T.......       10     10 ,     10     10      15:>A/Karaj/5607,2010/12/19                     
  16 >A/Karaj/5327,2010/12/06                     ...........T............................................G...................C...A.A.........................................C.......A..............AT.T......T       11     11 ,     11     11      16:>A/Karaj/5327,2010/12/06                     
  17 >A/Beijing/3848,2010/11/                     ---------------------------------------------------------------------------------------------------.........................C.......A..............AT.T......T      206    105 ,      6      6      17:>A/Beijing/3848,2010/11/                     
  18 >A/Beijing/3856,2010/11/                     ----------------------------------------------------------------------------------------------..............................C.......A..............AT.T......T      196    100 ,      6      6      18:>A/Beijing/3856,2010/11/                     
  19 >A/Karaj/5985,2010/12/27                     ...........T............................................G...................C...A.A.........................................C.......A..............AT.T......T       11     11 ,     11     11      19:>A/Karaj/5985,2010/12/27                     
  20 >A/Karaj/5987,2010/12/27                     ...........T............................................G...................C...A.A.........................................C.......A..............AT.T......T       11     11 ,     11     11      20:>A/Karaj/5987,2010/12/27                     
  21 >A/Tehran/5958,2010/12/27                    ...........T............................................G...................C...A.A.........................................C.......A..............AT.T......T       11     11 ,     11     11      21:>A/Tehran/5958,2010/12/27                    
  22 >A/Tehran/5963,2010/12/27                    ...........T............................................G...................C...A.A.........................................C.......A..............AT.T......T       11     11 ,     11     11      22:>A/Tehran/5963,2010/12/27                    
  23 >A/Karaj/6072,2010/12/29                     ...........T............................................G...................C...A.A.........................................C.......A..............AT.T......T       11     11 ,     11     11      23:>A/Karaj/6072,2010/12/29                     
  24 >A/Ghom/215,2010/12/30                       ...........T............................................G...................C...A.A.........................................C.......A..............AT.T......T       11     11 ,     11     11      24:>A/Ghom/215,2010/12/30                       
  25 >A/THA/CU-C1157,2010/09/07                   ...........T................................................................C...A.A.........................................C.......A..............AT.T......T       10     10 ,     10     10      25:>A/THA/CU-C1157,2010/09/07                   
  26 >A/THA/CU-H2358,2010/09/08                   ...........T................................................................C...A.A.........................................C.......A..............AT.T......T       10     10 ,     10     10      26:>A/THA/CU-H2358,2010/09/08                   
  27 >A/THA/CU-H2543,2010/09/25                   ...........T................................................................C...A.A.........................................C.......A..............AT.T......T       10     10 ,     10     10      27:>A/THA/CU-H2543,2010/09/25                   
  28 >A/Tehran/5675,2010/12/18                    ...........T................................................................C...A.A.........................................C.......A..............AT.T......T       10     10 ,     10     10      28:>A/Tehran/5675,2010/12/18                    
  29 >A/Karaj/6076,2010/12/29                     ...........T................................................................C...A.A.........................................C.......A..............AT.T......T       10     10 ,     10     10      29:>A/Karaj/6076,2010/12/29                     
  30 >A/Moscow/IIV-33,2010/10/13                  ............................................................................C...A.A.........................................C.......A..............AT.T......T        9      9 ,      9      9      30:>A/Moscow/IIV-33,2010/10/13                  
  31 >A/THA/CU-B4148,2010/10/09                   ............................................................G...............C...A.A.........................................C.......A..............AT.T......T       10     10 ,     10     10      31:>A/THA/CU-B4148,2010/10/09                   
  32 >A/THA/CU-H2548,2010/09/27                   ............................................................................C...A.A.......................T.................CA......A..............AT.T......T       11     11 ,     11     11      32:>A/THA/CU-H2548,2010/09/27                   
  33 >A/Ontario/720545,2010/11/17                 ...........T................................................................C...A.A....................................G....C.......A..............AT.T......T       11     11 ,     11     11      33:>A/Ontario/720545,2010/11/17                 
  34 >A/THA/CU-H2698,2010/11/03                   .......C...T............................................G...................C...A.A.........................................C.......A..............AT.T......T       12     12 ,     12     12      34:>A/THA/CU-H2698,2010/11/03                   
  35 >A/Beijing/3907,2010/11/                     .......C...T..............................A.............G...................C...A.A.........................................C.......A..............AT.T......T       13     13 ,     13     13      35:>A/Beijing/3907,2010/11/                     
  36 >A/Beijing/3884,2010/11/                     .......C...T..............................A.............G...................C...A.A....................................G....C.......A..............AT.T......T       15     14 ,     15     14      36:>A/Beijing/3884,2010/11/                     
  37 >A/THA/CU-B4339,2010/11/04                   ...........T............................................G...................C...A.A.........................................C.......A..............AT.T......T       12     11 ,     12     11      37:>A/THA/CU-B4339,2010/11/04                   
  38 >A/Karaj/5921,2010/12/27                     ...........T............................................G............A......C...A.A.........................................C.......A..............AT.T......T       12     12 ,     12     12      38:>A/Karaj/5921,2010/12/27                     
  39 >A/Karaj/5924,2010/12/27                     ...........T............................................G...................C...A.A.........................................C.......A..............AT.T......T       12     11 ,     12     11      39:>A/Karaj/5924,2010/12/27                     
  40 >A/Karaj/5718,2010/12/14                     ...........T........................C...................G...................C...A.A.........................................C.......A..............AT.T.......       11     11 ,     11     11      40:>A/Karaj/5718,2010/12/14                     
  41 >A/Karaj/5685,2010/12/21                     ...........T............................................G...................C...A.A.........................................C.......A..............AT.T.......       11     10 ,     11     10      41:>A/Karaj/5685,2010/12/21                     
  42 >A/Hangzhou/1,2011/01/04                     ..A........T.................................A..........G...................C...A.A.........................................C.......A..............AT.T....---       28     15 ,     12     12      42:>A/Hangzhou/1,2011/01/04                     
  43 >A/THA/CU-H2911,2011/01/20                   ..A........T.................................A..........G...................C...A.A.........................................C.......A..............AT.T......T       13     13 ,     13     13      43:>A/THA/CU-H2911,2011/01/20                   
  44 >A/Korea/AF21790,2011/01/09                  ..A........T.................................A..........G..................CC...A.A.........................................C.......A..-----------------------       76     33 ,     10     10      44:>A/Korea/AF21790,2011/01/09                  
  45 >A/Karaj/5795,2010/12/23                     ...........T............................................G...................C...A.A.........................................C.......A..............AT.T......T       13     11 ,     13     11      45:>A/Karaj/5795,2010/12/23                     
  46 >A/Vladivistok/7,2010/12/03                  ...........T............................................G...................C...A.A............A............................C.......A..............AT.T......T       14     12 ,     14     12      46:>A/Vladivistok/7,2010/12/03                  
  47 >A/Ulaanbaatar/190,2011/01/11                .......C...T...................................T........G...................C...A.A.........................................C.......A..............AT.T......T       14     13 ,     14     13      47:>A/Ulaanbaatar/190,2011/01/11                
  48 >A/Japane/AF21777,2011/01/13                 .......C...T............................................G...................C...A.A.........................................C.......A..-----------------------       75     31 ,      9      8      48:>A/Japane/AF21777,2011/01/13                 
  49 >A/Korea/AF21785,2011/01/10                  .......C...T.................................A..........G...................C...A.A.........................................C.......A..-----------------------       76     32 ,     10      9      49:>A/Korea/AF21785,2011/01/10                  
  50 >A/Florida/AF21772,2011/01/20                ...........T.................................A..........G......A............C...A.A.........................................C.......A..-----------------------       76     32 ,     10      9      50:>A/Florida/AF21772,2011/01/20                
  51 >A/THA/CU-H2216,2010/08/21                   ---........T............................................G...................C...A.A.....C...................................----------------------------------      108     43 ,      7      6      51:>A/THA/CU-H2216,2010/08/21                   
  52 >A/Denmark/107,2010/12/10                    ----.......T............................................G...................C...A.A.........................................C.......A..............AT.T.......       41     14 ,     13     10      52:>A/Denmark/107,2010/12/10                    
  53 >A/Florida/AF21770,2010/12/30                ...........TC.G...................................T.....G...................C...A.A.........................................C.......A..-----------------------       76     33 ,     10     10      53:>A/Florida/AF21770,2010/12/30                
  54 >A/New Mexico/AF21792,2011/01/14             ...........TC.G...................................T.....G...................C...A.A.........................................C.......A..-----------------------       76     33 ,     10     10      54:>A/New Mexico/AF21792,2011/01/14             
  55 >A/Korea/AF21784,2011/01/04                  A..........T............................................G...................C...A.A................................A........C.......A.A-----------------------       76     33 ,     10     10      55:>A/Korea/AF21784,2011/01/04                  
  56 >A/Korea/AF21788,2011/01/05                  A...G......T............................................G...................C...A.A................................A........C.......A.A-----------------------       77     34 ,     11     11      56:>A/Korea/AF21788,2011/01/05                  
  57 >A/Korea/AF21789,2011/01/07                  A...G......T............................................G...................C...A.A................................A........C.......A.A-----------------------       77     34 ,     11     11      57:>A/Korea/AF21789,2011/01/07                  
  58 >A/THA/CU-C1119,2010/09/01                   ------------------------------..............................................C.....A.........................................----------------------------------      170     66 ,      3      2      58:>A/THA/CU-C1119,2010/09/01                   
  59 >A/THA/34-9937,2010/07/14                    -------------------------------------------..................A..............C.....A..................---------------------------------------------------------      249    103 ,      3      3      59:>A/THA/34-9937,2010/07/14                    
  60 >A/Denmark/125,2010/12/21                    ---.................A.......................................................C.....A.........................................C.......A..............AT.......--       32     12 ,      7      7      60:>A/Denmark/125,2010/12/21                    
  61 >A/Denmark/132,2010/12/27                    ---.................A.......A...............................................C.....A.........................................C.......A..............AT.......--       33     13 ,      8      8      61:>A/Denmark/132,2010/12/27                    
  62 >A/THA/CU-H2389,2010/09/10                   ...................................T........................................C.....A.........................................C.......A..............AT.........        8      7 ,      8      7      62:>A/THA/CU-H2389,2010/09/10                   
  63 >A/THA/CU-H2283,2010/08/31                   ...................................T........................................C...A.A.........................................C.......A..............AT.........        9      8 ,      9      8      63:>A/THA/CU-H2283,2010/08/31                   
  64 >A/THA/CU-H2359,2010/09/09                   --------------------------------------------................................C...A.A......................................T..----------------------------------      196     82 ,      5      4      64:>A/THA/CU-H2359,2010/09/09                   
  65 >A/Czech Republic/1,2011/01/25               .....................................A......................................C.....A.........................................C.......A..............AT.......C.        9      8 ,      9      8      65:>A/Czech Republic/1,2011/01/25               
  66 >A/Milan/198,2011/02/01                      ----.................................A......................................C.....A...............T...........------------------------------------------------      141     56 ,      4      4      66:>A/Milan/198,2011/02/01                      
  67 >A/Denmark/118,2010/12/22                    ----.................................A......................................C.....A...............T.........................C.......A..............AT.......C.       37     13 ,      9      9      67:>A/Denmark/118,2010/12/22                    
  68 >A/North Carolina/AF21793,2010/12/14         .....................................A......................................CA....A...............T.........................C.......A..-----------------------       73     30 ,      7      7      68:>A/North Carolina/AF21793,2010/12/14         
  69 >A/Denmark/109,2010/12/10                    ----.C...............................A......................................C.....A.........................................C.......A..............AT.......C.       37     13 ,      9      9      69:>A/Denmark/109,2010/12/10                    
  70 >A/Denmark/131,2010/12/27                    ---..C......C........................A......................................C.....A.........................................C.......A..............AT.......C.       31     13 ,     10     10      70:>A/Denmark/131,2010/12/27                    
  71 >A/Denmark/130,2010/12/21                    ----.C...............................A......................................C.....A.........................................C....T..A..............AT.......C.       37     14 ,     11     10      71:>A/Denmark/130,2010/12/21                    
  72 >A/Milan/163,2011/01/14                      --------...............G.A...........A......................................C.....A.........................................----------------------------------      116     47 ,      5      5      72:>A/Milan/163,2011/01/14                      
  73 >A/Milan/18,2011/01/11                       --------...............G.A...........A......................................C.....A.........................................C.......A..............AT.......C.       30     18 ,     10     10      73:>A/Milan/18,2011/01/11                       
  74 >A/Denmark/129,2010/12/26                    ---....................G.A...........A......................................C.....A.........................................C.......A..............AT.......C.       32     13 ,     11     10      74:>A/Denmark/129,2010/12/26                    
  75 >A/Mexico/InDRE2202,2011/03/22               -------------------------------------A...................................G..C.....A...............------------------------------------------------------------      245    101 ,      4      4      75:>A/Mexico/InDRE2202,2011/03/22               
  76 >A/Illinois/AF21776,2011/01/03               .....................................A...................................G..C.....A.........................................C.......A..-----------------------       73     29 ,      7      6      76:>A/Illinois/AF21776,2011/01/03               
  77 >A/Milan/209,2011/02/08                      ----.................................A.................A.................G..C.....A...........................------------------------------------------------      142     57 ,      5      5      77:>A/Milan/209,2011/02/08                      
  78 >A/Milan/199,2011/02/01                      ----.................................A.................A.................G..C.....A.........................................C.......A.............GAT.........       36     14 ,     10     10      78:>A/Milan/199,2011/02/01                      
  79 >A/Milan/231,2011/02/03                      ----.................................A.................A.................G..C.....A.........................................C.......A.............GAT.........       36     14 ,     10     10      79:>A/Milan/231,2011/02/03                      
  80 >A/Milan/159,2011/01/07                      --------.............................A.................A.................G..C.....A.........................................----------------------------------      117     47 ,      6      5      80:>A/Milan/159,2011/01/07                      
  81 >A/Denmark/115,2010/12/14                    ---..................................A...................................G..C.....A................................T........C.......A.............GAT.........       31     13 ,     10     10      81:>A/Denmark/115,2010/12/14                    
  82 >A/Denmark/113,2010/12/15                    ----.................................A...................................G..C.....A................................T........C.......A.............GAT.........       38     14 ,     10     10      82:>A/Denmark/113,2010/12/15                    
  83 >A/Denmark/133,2010/12/25                    ----.................................A...................................G..C.....A................................T........C.......A.............GAT.........       38     14 ,     10     10      83:>A/Denmark/133,2010/12/25                    
  84 >A/Denmark/137,2010/12/26                    ----.................................A...................................G..C.....A................................T........C.......A.............GAT.........       36     14 ,     10     10      84:>A/Denmark/137,2010/12/26                    
  85 >A/Denmark/134,2010/12/27                    ----.................................A...................................G..C.....A................................T........C.......A.............GAT.........       38     14 ,     10     10      85:>A/Denmark/134,2010/12/27                    
  86 >A/Denmark/26,2011/01/13                     .....................................A...................................G..C.....A................................T........C.......A.............GAT.........       24     10 ,     11     10      86:>A/Denmark/26,2011/01/13                     
  87 >A/Ohio/AF21801,2011/01/20                   .....................................A...................................G..C.....A.............................A...........C.......A..-----------------------       73     30 ,      7      7      87:>A/Ohio/AF21801,2011/01/20                   
  88 >A/Ohio/AF21802,2011/01/20                   .....................................A...................................G..C.....A.........................................C.......A..-----------------------       73     29 ,      7      6      88:>A/Ohio/AF21802,2011/01/20                   
  89 >A/Hawaii/AF21775,2010/11/16                 .....................................A...................................G..C.....A.........................................C..-------------------------------       89     36 ,      6      5      89:>A/Hawaii/AF21775,2010/11/16                 
  90 >A/Denmark/120,2010/12/20                    ---..................................A...................................G..C.....A........R................................C.......A.............GAT.........       31     13 ,     10     10      90:>A/Denmark/120,2010/12/20                    
  91 >A/Denmark/24,2011/01/15                     ---..................................A...................................G..C.....A........R................................C.......A.............GAT.........       32     13 ,     11     10      91:>A/Denmark/24,2011/01/15                     
  92 >A/Milan/218,2011/02/12                      ----.................................A...................................G..C.....A.....C...................................C.......A.............GAT.........       36     14 ,     10     10      92:>A/Milan/218,2011/02/12                      
  93 >A/Milan/196,2011/02/01                      ----.................................A...................................G..C.....A.....C...................................C.......A.............GAT.........       37     14 ,     11     10      93:>A/Milan/196,2011/02/01                      
  94 >A/Milan/224,2011/01/31                      --------.............................A...................................G..C.....A.........................................----------------------------------      116     46 ,      5      4      94:>A/Milan/224,2011/01/31                      
  95 >A/Ohio/AF21798,2011/01/18                   ...............A.....................A...................................G..C.....A.........................................C.......A..-----------------------       74     30 ,      8      7      95:>A/Ohio/AF21798,2011/01/18                   
  96 >A/Ohio/AF21799,2011/01/18                   .....................................A...................................G..C.....A.........................................C.......A..-----------------------       74     29 ,      8      6      96:>A/Ohio/AF21799,2011/01/18                   
  97 >A/Delaware/AF21764,2010/12/07               ...............................T.....A......................................C.....A.................................................A..-----------------------       71     28 ,      5      5      97:>A/Delaware/AF21764,2010/12/07               
  98 >A/Hawaii/AF21773,2010/10/15                 ........................C.....................G...................................A.................................................A..-----------------------       70     27 ,      4      4      98:>A/Hawaii/AF21773,2010/10/15                 
  99 >A/THA/CU-H2079,2010/07/07                   ------------------------------...........A....G...................................A.........................................----------------------------------      171     67 ,      3      3      99:>A/THA/CU-H2079,2010/07/07                   
 100 >A/THA/CU-H2293,2010/09/02                   ------------------.......................A....G...................................A.........................................----------------------------------      145     55 ,      3      3     100:>A/THA/CU-H2293,2010/09/02                   
 101 >A/THA/CU-H2085,2010/07/07                   -----------------------..................A....G...................................A.................G.......................----------------------------------      158     61 ,      4      4     101:>A/THA/CU-H2085,2010/07/07                   
 102 >A/Milan/04,2010/11/29                       --------.........T..................A....A....G.......................C...........A.................................................A...............T.........       28     16 ,      8      8     102:>A/Milan/04,2010/11/29                       
 103 >A/Milan/05,2010/12/01                       --------.........T..................A....A....G.......................C...........A.................................................A...............T.........       28     16 ,      8      8     103:>A/Milan/05,2010/12/01                       
 104 >A/Milan/10,2010/12/27                       --------.........T..................A....A....G.......................C...........A.................................................A...............T.........       28     16 ,      8      8     104:>A/Milan/10,2010/12/27                       
 105 >A/Milan/26,2011/01/18                       --------.........T..................A....A....G...................C...............A.................................................A...............T.........       28     16 ,      8      8     105:>A/Milan/26,2011/01/18                       
 106 >A/Milan/03,2010/11/24                       --------.........T..................A....A....G.......................C...........A.................................................A...............T......---       52     19 ,     11      8     106:>A/Milan/03,2010/11/24                       
 107 >A/THA/CU-C1025,2010/07/29                   -------------------------------------------------------------------------.........A.........A..............G................----------------------------------      245    110 ,      3      3     107:>A/THA/CU-C1025,2010/07/29                   
 108 >A/THA/CU-C1006,2010/07/22                   --------------------------------------------------------------------------------..A.........A..............G.................---------------------------------      258    116 ,      3      3     108:>A/THA/CU-C1006,2010/07/22                   
 109 >A/Milan/15,2011/01/11                       --------................C.....................G...................................A.................................................A...............T..G......       26     14 ,      6      6     109:>A/Milan/15,2011/01/11                       
 110 >A/Denmark/116,2010/12/14                    ----....................C.....................G...................................A.................................................A...............T..G......       35     10 ,      7      6     110:>A/Denmark/116,2010/12/14                    
 111 >A/Denmark/108,2010/12/10                    ---.....................C.....................G...................................A.................................................A...............T..G......       29      9 ,      8      6     111:>A/Denmark/108,2010/12/10                    
 112 >A/Milan/01,2011/01/04                       --------................C.....................G.......................C...........A.........................................----------------------------------      116     46 ,      5      4     112:>A/Milan/01,2011/01/04                       
 113 >A/THA/34-9936,2010/07/14                    -------------------------------------------...G...................................A..................---------------------------------------------------------      248    102 ,      3      2     113:>A/THA/34-9936,2010/07/14                    
 114 >A/THA/CU-H2301,2010/09/02                   -------------------------..........................A.......................C......A.........................................----------------------------------      161     62 ,      3      3     114:>A/THA/CU-H2301,2010/09/02                   
 115 >A/THA/ST_0111,2010/10/                      ----------------------------------------------.....A.......................C......A---------------------------------------------------------------------------      288    124 ,      3      3     115:>A/THA/ST_0111,2010/10/                      
 116 >A/THA/ST_0112_1,2010/10/                    -------------------------------------------........A.......................C......A.......--------------------------------------------------------------------      268    114 ,      3      3     116:>A/THA/ST_0112_1,2010/10/                    
 117 >A/THA/ST_0113,2010/10/                      ---------------------------------------------......A.......................C......A............................-----------------------------------------------      227     95 ,      3      3     117:>A/THA/ST_0113,2010/10/                      
 118 >A/THA/ST_0153,2010/10/                      ----------------------------------------------.....A.......................C......A....-----------------------------------------------------------------------      280    120 ,      3      3     118:>A/THA/ST_0153,2010/10/                      
 119 >A/Milan/186,2011/01/26                      --------...........................................A.......................C......A..............................C..........----------------------------------      114     46 ,      4      4     119:>A/Milan/186,2011/01/26                      
 120 >A/Milan/170,2011/01/20                      --------...........................................A.......................C......A..............................C..........----------------------------------      117     46 ,      6      4     120:>A/Milan/170,2011/01/20                      
 121 >A/THA/SN_0112_2,2010/10/                    -------------------------------------------........A.......................C......A...............------------------------------------------------------------      255    106 ,      4      3     121:>A/THA/SN_0112_2,2010/10/                    
 122 >A/THA/CU-H2295,2010/09/02                   ---------------------..............................A..........A............C......A.........................................----------------------------------      157     59 ,      5      4     122:>A/THA/CU-H2295,2010/09/02                   
 123 >A/Korea/AF21781,2010/12/21                  ...................................................A..........A............C......A............................T................G......-----------------------       72     29 ,      6      6     123:>A/Korea/AF21781,2010/12/21                  
 124 >A/Korea/AF21779,2010/12/24                  ...................................................A..........A............C......A............................T................G......-----------------------       72     29 ,      6      6     124:>A/Korea/AF21779,2010/12/24                  
 125 >A/Korea/AF21782,2010/12/29                  ...................................................A..........A............C......A............................T................G......-----------------------       73     29 ,      7      6     125:>A/Korea/AF21782,2010/12/29                  
 126 >A/Ontario/804635,2010/12/14                 ...................................................A..........A............C......A............................T................G...................T...T.....        9      8 ,      9      8     126:>A/Ontario/804635,2010/12/14                 
 127 >A/Tunisia/422,2011/01/07                    ...................................................A..........A............C......A............................T................G...................T...T.....        9      8 ,      9      8     127:>A/Tunisia/422,2011/01/07                    
 128 >A/Milan/210,2011/02/08                      ----...............................................A...T......A............C......A...........................GT..G.............G...................T...T.....       39     15 ,     13     11     128:>A/Milan/210,2011/02/08                      
 129 >A/Milan/121,2011/02/02                      --------...........................................A...T......A............C......A...........................GT..G.........----------------------------------      119     50 ,      8      8     129:>A/Milan/121,2011/02/02                      
 130 >A/Bandar Abbas/5096,2010/10/02              ..........................C........................A.......................C......A..................................................G..............T...T.....        9      7 ,      9      7     130:>A/Bandar Abbas/5096,2010/10/02              
 131 >A/North Carolina/AF21797,2011/01/20         ...................................................A.......................C......A.A................................................G.-----------------------       72     28 ,      6      5     131:>A/North Carolina/AF21797,2011/01/20         
 132 >A/Shahriar/5336,2010/12/06                  ...................................................A.......................C......A..............................C........C............A....C...G...T...T.....       11     10 ,     11     10     132:>A/Shahriar/5336,2010/12/06                  
 133 >A/Karaj/5660,2010/12/13                     ...................................................A.......................C......A..............................C........C............A........G...T...T.....       15      9 ,     15      9     133:>A/Karaj/5660,2010/12/13                     
 134 >A/THA/34-9913,2010/07/14                    --------------------------------------------------------------------..............A..................---------------------------------------------------------      294    126 ,      2      1     134:>A/THA/34-9913,2010/07/14                    
 135 >A/THA/34-9943,2010/07/14                    -------------------------------------------.......................................A..................---------------------------------------------------------      247    101 ,      2      1     135:>A/THA/34-9943,2010/07/14                    
 136 >A/THA/CU-H2176,2010/08/17                   ..................................................................................A.....C.........T.........................C......................AT.T......T        8      8 ,      8      8     136:>A/THA/CU-H2176,2010/08/17                   
 137 >A/Denmark/104,2010/11/17                    ----..............................................................................A.........................................C.......A..............AT......T..       35     10 ,      7      6     137:>A/Denmark/104,2010/11/17                    
 138 >A/Korea/AF21778,2010/12/23                  ............................................................................C.....A.A.......................................C.......A..-----------------------       73     28 ,      7      5     138:>A/Korea/AF21778,2010/12/23                  
 139 >A/Denmark/114,2010/12/14                    ---..................................A......................................C.....A.........................................C.......A..............AT.......C.       31     11 ,     10      8     139:>A/Denmark/114,2010/12/14                    
 140 >A/Milan/219,2011/02/13                      ----.......T.........................A......................................C.....A....................A....................C.......A..............AT.......C.       36     14 ,     10     10     140:>A/Milan/219,2011/02/13                      
 141 >A/Ontario/130741,2010/10/13                 ............................................................................C.....AA........................................C.......A..............AT.........       11      7 ,     11      7     141:>A/Ontario/130741,2010/10/13                 
 142 >A/Denmark/20,2011/01/04                     ---.................A.......................................................C.....A....................A....................C.......A..............AT......T..       33     12 ,     12      9     142:>A/Denmark/20,2011/01/04                     
 143 >A/District of Columbia/AF21769,2011/01/10   ...............A...............................................A............C.....A..............T.......................A..C.......A..-----------------------       75     31 ,      9      8     143:>A/District of Columbia/AF21769,2011/01/10   
 144 >A/Ohio/AF21800,2011/01/18                   .......................................A.......................A............C.....A..............T.......................A..C.......A..-----------------------       75     31 ,      9      8     144:>A/Ohio/AF21800,2011/01/18                   
 145 >A/THA/CU-C1028,2010/08/05                   -------.......G........................A...............................A..........A........................G................----------------------------------      111     46 ,      5      5     145:>A/THA/CU-C1028,2010/08/05                   
 146 >A/THA/CU-C1005,2010/07/22                   -------.......G........................A...............................A..........A........................G.................---------------------------------      110     45 ,      5      5     146:>A/THA/CU-C1005,2010/07/22                   
 147 >A/THA/CU-H2417,2010/09/13                   ..............G........................A...............................A..........A........................G........................A...............T.........        8      7 ,      8      7     147:>A/THA/CU-H2417,2010/09/13                   
 148 >A/Ghom/169,2010/12/29                       ...................G.................A.A..........................C...............AA...G...........T................................A............A..T.........       11     11 ,     11     11     148:>A/Ghom/169,2010/12/29                       
 149 >A/Ghom/198,2010/12/29                       ...................G.................A.A..........................C...............AA...G...........T................................A............A..T.........       11     11 ,     11     11     149:>A/Ghom/198,2010/12/29                       
 150 >A/Ghom/167,2010/12/30                       ...................G.................A.A..........................C...............AA...G...........T................................A............A..T.........       11     11 ,     11     11     150:>A/Ghom/167,2010/12/30                       
 151 >A/Denmark/127,2010/12/22                    ----.........T.....G.................A.A..........................C...............AA...G...........T...........................G....A............A..T.........       39     17 ,     13     13     151:>A/Denmark/127,2010/12/22                    
 152 >A/Milan/64,2011/01/20                       ----.........T.....G.................A.A..........................C...............AA...G...........T.......---------------------------------------------------      155     64 ,      9      9     152:>A/Milan/64,2011/01/20                       
 153 >A/Denmark/27,2011/01/13                     ----.........T.....G.................A.A..........................C...............AA...G...........T...........................G....A............A..T.........       42     17 ,     14     13     153:>A/Denmark/27,2011/01/13                     
 154 >A/Washington/AF21804,2011/01/02             ...................G.................A.A..........................C...............AA...G...........T......T.........................A..-----------------------       77     33 ,     11     10     154:>A/Washington/AF21804,2011/01/02             
 155 >A/Milan/55,2011/01/17                       --------...........G........C....C...A................A...........C...............AA...G...........T.................C.........C....A............A..T.........       35     23 ,     15     15     155:>A/Milan/55,2011/01/17                       
 156 >A/Milan/162,2011/01/14                      --------...........G........C....C...A................A...........C...............AA...G...........T.................C......----------------------------------      122     53 ,     11     11     156:>A/Milan/162,2011/01/14                      
 157 >A/Milan/40,2011/01/18                       --------...........G........C....C...A................A...........C...............AA...G...........T.................C.........C....A............A..T.........       35     23 ,     15     15     157:>A/Milan/40,2011/01/18                       
 158 >A/Milan/220,2011/01/20                      --------...........G........C....C...A................A...........C...............AA...G...........T.................C......----------------------------------      122     53 ,     11     11     158:>A/Milan/220,2011/01/20                      
 159 >A/Milan/98,2011/01/21                       --------...........G........C....C...A................A...........C...............AA...G...........T.................C......----------------------------------      122     53 ,     11     11     159:>A/Milan/98,2011/01/21                       
 160 >A/Milan/124,2011/02/04                      ----...............G........C....C...A................A...........C...............AA...G...........T.......---------------------------------------------------      156     65 ,     10     10     160:>A/Milan/124,2011/02/04                      
 161 >A/Milan/35,2011/01/13                       --------...........G........C....C...A................A...........C...............AA...G...........T.................C.........C..A.A............A..T.........       36     24 ,     16     16     161:>A/Milan/35,2011/01/13                       
 162 >A/Milan/166,2011/01/17                      --------...........G........C....C...A................A...........C...............AA...G...........T.................C......----------------------------------      120     53 ,     12     11     162:>A/Milan/166,2011/01/17                      
 163 >A/Milan/80,2011/01/24                       --------...........G........C....C...A................A...........C...............AA...G...........T.................C.........C....A............A..T.........       36     23 ,     16     15     163:>A/Milan/80,2011/01/24                       
 164 >A/Milan/99,2011/01/21                       --------...........G........C....C...A................A...........C...............AA...G...........T........................----------------------------------      120     52 ,     10     10     164:>A/Milan/99,2011/01/21                       
 165 >A/Milan/84,2011/01/25                       --------...........G........C.C..C...A................A...........C...............AA...G...........T.................C.........C....A............A..T.........       36     24 ,     16     16     165:>A/Milan/84,2011/01/25                       
 166 >A/Milan/90,2011/01/26                       --------...........G........C....C...A................A...........C...............AA...G...........T.................C.........C....A............A..T......A..       36     24 ,     16     16     166:>A/Milan/90,2011/01/26                       
 167 >A/Milan/75,2011/01/26                       --------...........G........C....C...A................A...........C...............AA...G...........T.................C......----------------------------------      122     53 ,     12     11     167:>A/Milan/75,2011/01/26                       
 168 >A/Milan/188,2011/01/27                      ----....A..........G........C....C...A................A...........C...............AA...G...........T.................C.........C....A............A..T.........       42     20 ,     16     16     168:>A/Milan/188,2011/01/27                      
 169 >A/Milan/230,2011/02/03                      ----....C..........G........C....C...A................A...........C...............AA...G...........T.................C.........C....A............A..T.......--       46     22 ,     16     16     169:>A/Milan/230,2011/02/03                      
 170 >A/Milan/194,2011/01/31                      ----...............G........C....C...A................A.....G.....C...............AA...G...........T.................C.........C....A............A..T.........       42     20 ,     16     16     170:>A/Milan/194,2011/01/31                      
 171 >A/Milan/213,2011/02/10                      ----...........T...G........C....C...A................A...........C...............AA...G...........T.................C.........C....A............A..T.........       42     20 ,     16     16     171:>A/Milan/213,2011/02/10                      
 172 >A/Milan/236,2011/02/19                      ----...............G........C....C...A................A...........C...............AA...G...........T.................C.........C....A............A..T.........       42     19 ,     16     15     172:>A/Milan/236,2011/02/19                      
 173 >A/Milan/122,2011/01/31                      --------...........G........C....C...A................A...........C...............AA...G...........T.................C......----------------------------------      123     53 ,     12     11     173:>A/Milan/122,2011/01/31                      
 174 >A/Milan/237,2011/02/20                      ----...............G........C....C...A................A...........C...............AA...G...........T.................C.........C....A............A..T.........       42     19 ,     16     15     174:>A/Milan/237,2011/02/20                      
 175 >A/Milan/197,2011/01/31                      --------...........G........C....C...A............A...A...........C...............AA...G...........T.................C......----------------------------------      121     54 ,     12     12     175:>A/Milan/197,2011/01/31                      
 176 >A/Milan/206,2011/02/08                      --------...........G........C....C...A................A...........C...............AA...G...........T.................C.......---------------------------------      119     52 ,     12     11     176:>A/Milan/206,2011/02/08                      
 177 >A/Milan/88,2011/01/24                       --------...........G........C....C...AA...............A...........C...............AA...G...........T.................C.........C....A............A..T.T.......       37     25 ,     17     17     177:>A/Milan/88,2011/01/24                       
 178 >A/Milan/24,2011/01/14                       --------...........G........C....C...AA...............A....T......C...............AA...G...........T.................C.........C....A............A..T....T....       49     26 ,     18     18     178:>A/Milan/24,2011/01/14                       
 179 >A/Milan/72,2011/01/21                       --------...........G........C....C...AA...............A....T......C...............AA...G...........T.................C.........C....A............A..T....T....       38     26 ,     18     18     179:>A/Milan/72,2011/01/21                       
 180 >A/Milan/181,2011/01/28                      ----....A..........G........C....C...A................A...........C...............AA...G...........T.................C..............A............A..T.........       42     19 ,     16     15     180:>A/Milan/181,2011/01/28                      
 181 >A/Milan/184,2011/01/25                      --------....................C....C...A................A...........C...............AA...G..A........T.................C..A...----------------------------------      123     54 ,     12     12     181:>A/Milan/184,2011/01/25                      
 182 >A/Milan/235,2011/02/22                      ----...............G........C....C...A.........T......A.........G.C...............AA...G...........T................GC.........C....A............A..T......A..       47     23 ,     21     19     182:>A/Milan/235,2011/02/22                      
 183 >A/Milan/160,2011/01/11                      --------...........G......C..........A....A.......................C...............AA...G...........T....................A...----------------------------------      122     52 ,     11     10     183:>A/Milan/160,2011/01/11                      
 184 >A/Sw/THA/CU-RP3,2010/09/                    ..................T..C.....................................................A......A...G.................................A...........A..........C....TC......--       29     12 ,     14     10     184:>A/Sw/THA/CU-RP3,2010/09/                    
 185 >A/Sw/Taiwan/TD-2542,2010/09/01              ...............................................T..................................A.........................................................C.......T.........       11      4 ,     11      4     185:>A/Sw/Taiwan/TD-2542,2010/09/01              
 186 >A/Yamagata/165,2010/08/03                   ............................A..A................................................A.A......................................T.....-------------------------------       91     36 ,      7      5     186:>A/Yamagata/165,2010/08/03                   
 187 >A/Beijing/3872,2010/11/                     .......C...T..............................A.............G...................C...A.A.....................................................G..........AT.T......T       13     12 ,     13     12     187:>A/Beijing/3872,2010/11/                     
 188 >A/Korea/AF21780,2010/12/24                  .......C...T............................................G...........G.......C...A.A.........................................C.......A..-----------------------       77     32 ,     11      9     188:>A/Korea/AF21780,2010/12/24                  
 189 >A/Korea/AF21783,2010/12/29                  .......C...T............................................G..........C........C...A.A.........................................C.......A..-----------------------       78     32 ,     12      9     189:>A/Korea/AF21783,2010/12/29                  
 190 >A/Fuzhou/02,2010/12/19                      ..A........T...................A.............A......G...G...................C..AA.A.........................................C.......A..............AT.T......T       19     16 ,     19     16     190:>A/Fuzhou/02,2010/12/19                      
 191 >A/Sw/THA/CU-DP83,2010/12/                   ...........T................................................................C...A.A..........G........G.........T............AG....................AT.TG.....T       26     14 ,     15     14     191:>A/Sw/THA/CU-DP83,2010/12/                   
 192 >A/THA/SN_0116,2010/10/                      ----------------------------------------------..........................T...C...A.A.............--------------------------------------------------------------      266    112 ,      5      4     192:>A/THA/SN_0116,2010/10/                      
 193 >A/Denmark/111,2010/12/07                    ----......G.....................C...........A..................A.............A....A..T...................A....G.....G........A.............C........T..G....--       44     20 ,     14     14     193:>A/Denmark/111,2010/12/07                    
 194 >A/New Jersey/AF21791,2011/01/13             ..........G.....................C...........A..................A.............A....A..T...................A....G.....G........A.........-----------------------       79     34 ,     13     11     194:>A/New Jersey/AF21791,2011/01/13             
 195 >A/Florida/AF21771,2011/01/12                .A......A.G.................................A..................A.............A....A..T...................A....G.....G........A.........-----------------------       78     35 ,     12     12     195:>A/Florida/AF21771,2011/01/12                
 196 >A/North Carolina/AF21796,2011/01/18         .A....G...G.......................T.........A..................A.............A....A..T..................TA....G.....G........A.........-----------------------       80     37 ,     14     14     196:>A/North Carolina/AF21796,2011/01/18         
 197 >A/South Carolina/AF21803,2011/01/14         .A....G...G.......................T.........A..................A.............A....A..T..................TA....G.....G........A....A....-----------------------       81     38 ,     15     15     197:>A/South Carolina/AF21803,2011/01/14         
 198 >A/Arizona/AF21768,2011/01/07                .A....G...G.......................T.........A...............G..A.............A....A..T..................TA....G.....G........A.........-----------------------       82     38 ,     16     15     198:>A/Arizona/AF21768,2011/01/07                
 199 >A/Mexico/InDRE1946,2011/03/22               .........TG.........A......T................A........A...C.....A.............A....A..T...................A....G.....G........A..........G..C........T.........       18     18 ,     18     18     199:>A/Mexico/InDRE1946,2011/03/22               
 200 >A/Mexico/InDRE2192,2011/03/28               -------------------------------------.......A........A...C.....A.............A....A..T............------------------------------------------------------------      248    104 ,      7      7     200:>A/Mexico/InDRE2192,2011/03/28               
 201 >A/Mexico/InDRE2197,2011/03/28               -------------------------------------.......A........A...C.....A.............A....A..T............------------------------------------------------------------      248    104 ,      7      7     201:>A/Mexico/InDRE2197,2011/03/28               
 202 >A/Mexico/InDRE2200,2011/03/29               -------------------------------------.......A........A...C.....A.............A....A..T............------------------------------------------------------------      248    104 ,      7      7     202:>A/Mexico/InDRE2200,2011/03/29               
 203 >A/Mexico/InDRE2222,2011/03/31               -------------------------------------.......A........A...C.....A.............A....A..T............------------------------------------------------------------      248    104 ,      7      7     203:>A/Mexico/InDRE2222,2011/03/31               
 204 >A/Mexico/InDRE2415,2011/03/31               -------------------------------------.......A........A...C.....A.............A....A..T............------------------------------------------------------------      248    104 ,      7      7     204:>A/Mexico/InDRE2415,2011/03/31               
 205 >A/Mexico/InDRE2407,2011/04/01               -------------------------------------.......A........A...C.....A.............A....A..T............------------------------------------------------------------      248    104 ,      7      7     205:>A/Mexico/InDRE2407,2011/04/01               
 206 >A/Mexico/InDRE2408,2011/04/02               -------------------------------------.......A........A...C.....A.............A....A..T............------------------------------------------------------------      248    104 ,      7      7     206:>A/Mexico/InDRE2408,2011/04/02               
 207 >A/Mexico/InDRE1945,2011/03/                 .........TG.........A......T................A........A...C.....A.............A....A..T....A..............A....G.....G........A..........G..C........T.........       19     19 ,     19     19     207:>A/Mexico/InDRE1945,2011/03/                 
 208 >A/Mexico/InDRE1947,2011/03/23               .........TG.........A.......................A........A...C.....A.............A....A..T..............G....A....G.....G........A..........G..C........T.........       18     18 ,     18     18     208:>A/Mexico/InDRE1947,2011/03/23               
 209 >A/Mexico/InDRE2413,2011/03/27               -------------------------------------.......A........A...C.....A.............A....A..T...........A------------------------------------------------------------      250    105 ,      9      8     209:>A/Mexico/InDRE2413,2011/03/27               
 210 >A/Mexico/InDRE2195,2011/03/28               -------------------------------------.......A........A...C.....A.............A....A..T....RR......------------------------------------------------------------      250    106 ,      9      9     210:>A/Mexico/InDRE2195,2011/03/28               
 211 >A/Ontario/741328,2010/11/23                 ...G...............................................A......C...A....C.......C......A...........G..............T..................G...................T...T.A...       13     13 ,     13     13     211:>A/Ontario/741328,2010/11/23                 
 212 >A/Ontario/3620,2010/11/24                   ...G...............................................A......C...A....C.......C......A...........G..............T..................G...................T...T.A...       13     13 ,     13     13     212:>A/Ontario/3620,2010/11/24                   
 213 >A/Milan/10,2011/01/03                       --------...........G........C....C.......A....G.......................C...........A.........................................----------------------------------      118     49 ,      7      7     213:>A/Milan/10,2011/01/03                       
 214 >A/Hawaii/AF21774,2010/11/07                 .................T.......................A....G...................................AA................................................A..-----------------------       76     29 ,     10      6     214:>A/Hawaii/AF21774,2010/11/07                 
 215 >A/Tunisia/197,2011/01/04                    ..............................C......................................A............A..........................................A......A...............T.........       15      6 ,     15      6     215:>A/Tunisia/197,2011/01/04                    
 216 >A/HuZhou/01,2010/12/                        ........................A..................A....C...............CT...............CA.................G.............G................TA...............T.........       16     12 ,     16     12     216:>A/HuZhou/01,2010/12/                        
 217 >A/Mexico/InDRE2194,2011/03/28               -------------------------------------...G..A....C...............CT...............CA...............------------------------------------------------------------      248    104 ,      7      7     217:>A/Mexico/InDRE2194,2011/03/28               
 218 >A/Mexico/InDRE2214,2011/03/31               -------------------------------------...G..A....C...............CT...............CA...............------------------------------------------------------------      248    104 ,      7      7     218:>A/Mexico/InDRE2214,2011/03/31               
 219 >A/Mexico/InDRE2419,2011/04/02               -------------------------------------...G..A....C...............CT...............CA...............------------------------------------------------------------      248    104 ,      7      7     219:>A/Mexico/InDRE2419,2011/04/02               
 220 >A/Mexico/InDRE2425,2011/04/05               -------------------------------------...G..A....C...............CT...............CA...............------------------------------------------------------------      248    104 ,      7      7     220:>A/Mexico/InDRE2425,2011/04/05               
 221 >A/Mexico/InDRE2424,2011/04/04               -------------------------------------...G..A....C...............CT...A...........CA...............------------------------------------------------------------      250    105 ,      9      8     221:>A/Mexico/InDRE2424,2011/04/04               
 222 >A/Sw/Minnesota/54354,2010/10/27             .T.........................A........C.............................................A................................................C..G.............T.........       17      7 ,     17      7     222:>A/Sw/Minnesota/54354,2010/10/27             
 223 >A/Sw/Costa Rica/000125-14,2010/11/01        ..........G...........G......A...............T......T...................T................G.....TA....A......G.........T....C.....T.G..........................       15     15 ,     15     15     223:>A/Sw/Costa Rica/000125-14,2010/11/01        
 224 >A/Sw/Costa Rica/000125-19,2010/11/01        ..........G...........G......A...............T......T...................T................G.....TA....A......G.........T....C.....T.G.....G....................       17     16 ,     17     16     224:>A/Sw/Costa Rica/000125-19,2010/11/01        
 225 >A/Sw/Costa Rica/000125-20,2010/11/01        ..........G...........G......A...............T......T....................................G.....TA....A......G.........T....C.....T.G..........A...............       15     15 ,     15     15     225:>A/Sw/Costa Rica/000125-20,2010/11/01        
 226 >A/Sw/Costa Rica/000125-3,2010/11/01         ..........G...........G......A...............T......T........T............G...T..........G.....TA....A......G.........T....C.....T.G.....GT...A...............       20     20 ,     20     20     226:>A/Sw/Costa Rica/000125-3,2010/11/01         
 227 >A/Sw/Costa Rica/000125-15,2010/11/01        ..........G...........G......A...............T......T.....................G...T..........G.....TA....A......G.........T....C.....T.G..........................       19     16 ,     19     16     227:>A/Sw/Costa Rica/000125-15,2010/11/01        
 228 >A/Sw/Costa Rica/000125-16,2010/11/01        ..........G...........G......A...............T......T........T.T........T................G.....TA....A......G.........T....C.....T.G......T...................       19     18 ,     19     18     228:>A/Sw/Costa Rica/000125-16,2010/11/01        
 229 >A/Korea/AF21786,2011/01/04                  .........T...........................A.......T..............................C.....A.........................................C.......A..-----------------------       78     30 ,     12      7     229:>A/Korea/AF21786,2011/01/04                  
 230 >A/Sw/THA/CU-PL65,2010/11/                   ................A................................G.........T........G..........C.............G.................T............C.......A........A......T.........       20     11 ,     20     11     230:>A/Sw/THA/CU-PL65,2010/11/                   
 231 >A/Sw/THA/CU-PL63,2010/11/                   -------.........A................................G..........G.......G..........C......................G.........T............AG..............A......T.........       39     18 ,     21     11     231:>A/Sw/THA/CU-PL63,2010/11/                   
 232 >A/Sw/THA/CU-RP1,2010/09/                    ...G......T..A....T..C.....................................................A......A...G.............................................A..........C....TC........       34     12 ,     34     12     232:>A/Sw/THA/CU-RP1,2010/09/                    
                                                                                                                                                                                                                 
---Index------------------------------------------GGCAATATGCACTCAGGCCAGTAATGTCTGTGTTCATGTGAGGGGGACTAGGATTGAATCACGGACTTAGAGCACTGGGTGTTGGCAATAGATAACGGCGAGAGCGCAAGTCGTACAACAGGTTTGAAACGAGATGAAATTGGTTGAGCTCACCGGTC 
-codon-position----------------------------------- 112  1 1 1  111 11   22  1   12   2 1        1 1  1   11  1 2 22   21 1  11211 1212   12 12 2 11  1  22 1 12     1   2 1      2   112   1    1    212         
                                                  00000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000111111111111111111111111111111111111111 
                                                  00000000011111111111222222222223333333333333344444444444444555555555555555556666666666666777777777778888888889999999999000000001111111122222233333344444445666 
                                                  01246667934444666788011124588990022334445669902334555667789012333455666677990012445678999011112455790033467890023334569011225881345677901223725678800334676255 
                                                  66270342152478368213702829628182314230287060684237013252892267169625357839285701078581078856799849761406950090310345735227036068108512465273597840638079463936

Code:

**mixin** · April 28, 2011, 07:59 AM

Re: Sequences at Genbank!

Here's a different look at the new InDRE/Chihuahua sequences from Genbank, including the first 3 full length and 8 partials from the last submission. I shortened the 3 full ones for comparison purposes.

We are seeing 2 well-defined groups and a 3rd odd one from just the partials. I underlined the changes at position D225N/X (G715A and G715R, A716R) from the first group; there are no changes in that position in the new group.

A357G,G390A,T433C,A539C,C546T,G565A,C570A,T647C,T6 58A InDRE2424
A357G,G390A,T433C,A539C,C546T,T647C,T658A InDRE2419
A357G,G390A,T433C,A539C,C546T,T647C,T658A InDRE2425
A357G,G390A,T433C,A539C,C546T,T647C,T658A InDRE/2194
A357G,G390A,T433C,A539C,C546T,T647C,T658A InDRE/2214

***************

A354G,G396A,T462A,A489C,G536A,G607A,T658A,C681T,G7 59A InDRE2413
G396A,T462A,A489C,G536A,G607A,T658A,C681T InDRE2407
G396A,T462A,A489C,G536A,G607A,T658A,C681T InDRE2408
G396A,T462A,A489C,G536A,G607A,T658A,C681T InDRE2415
G396A,T462A,A489C,G536A,G607A,T658A,C681T,G715R,A716R InDRE/2195
G396A,T462A,A489C,G536A,G607A,T658A,C681T,G715A, InDRE/1945
G396A,T462A,A489C,G536A,G607A,T658A,C681T InDre/2192
G396A,T462A,A489C,G536A,G607A,T658A,C681T InDRE/1946
G396A,T462A,A489C,G536A,G607A,T658A,C681T InDRE/1947
G396A,T462A,A489C,G536A,G607A,T658A,C681T InDRE/2197
G396A,T462A,A489C,G536A,G607A,T658A,C681T InDRE/2200
G396A,T462A,A489C,G536A,G607A,T658A,C681T InDRE/2222

****************

G408A,A478G,G605C,G640A,T658A,G754A InDRE4274
G408A,A478G,G605C,G640A,T658A InDRE2409
G340A,A579G,G605C,T658A InDRE/2202

******************************

Here are the 3 full length HA sequences (tails cut off), INDRE/1945,46,47

InDRE/1945
C135T,A142G,G207A,C282T,G396A,T462A,A489C,G536A,G6 07A,T658A,C681T,G715A,
G865A,T903G,A957G,G1080A,A1215G,T1233C,C1408T,A173 0C,

InDRE/1946
C135T,A142G,G207A,C282T,G396A,T462A,A489C,G536A,G6 07A,T658A,C681T,G865A,
T903G,A957G,G1080A,A1215G,T1233C,C1408T,A1730C,

InDRE/1947
C135T,A142G,G207A,G396A,T462A,A489C,G536A,G607A,T6 58A,C681T,A801G,G865A,
T903G,A957G, G1080A,A1215G,T1233C,C1408T,A1730C

**gsgs** · April 30, 2011, 03:37 AM

Re: Sequences at Genbank!

did we have Chile already ?
remember, they had a bad wave in mid 2009, together
with Argentina and we were wondering whether the
virus had mutated

well, I see I had mxsa5 from Jan.2011, 238 viruses from South America,
54 of them from Chile

Anyway, Chile sequences at genbank, maybe old ones and I'm running
them through my program, 61 viruses, results in ~10min

A/Santiago/3221/2009/06/30(H1N1) has a different NP (segment 5)

Chile1(46=90&#37

markers: C68T(1),G1485A(5),G89A(7),G339A(7)
Chile2(5=10%) markers: C1263T(2),T414C(8)

Code:

                                           00000001111122 00112 0001112 000011111 000111111 00000011 000000 00000        
                                           01123490367911 46350 0592370 069911344 123122445 34457801 003456 03334        
                                           61227869527456 60746 8586737 953848403 090456890 12794965 683990 72681        
                                           87368995893733 13421 4103520 584308187 083618890 66192435 999290 30774        
-codon-position----------------------------2  1    2   2  2      22 11  2112   1  11   2 2  1  21 1   2  2  121          
---Index-----------------------------------CAGAATCGCGGAAG GGAGG GGACAGC CTAACAACC GGCGGGGGA GCCAACAT GGGGCG ACAAT        
   1 >A/******/index/2009/02/01            .............. ..... ....... ......... ......... ........ ...... .....        
   2 >A/Chile/95/2009/05/27                T........A...A ..... ....... .A.....T. .A.AAAA.. A...G... .AAA.A ..G..       1
   3 >A/Chile/1624/2009/06/15              T........A...A ..... ....... .A.....T. .A.AAAA.. A...G... .AAA.A ..G..       1
   4 >A/Chile/1603/2009/06/15              T........A...A ..... ....... .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       1
   5 >A/Chile/158/2009/05/28               T........A...A ..... ....... .A.....T. .A.AA.A.. A.T.G.G. .AAA.A ..G..       1
   6 >A/Chile/2009/2009/06/18              T........A...A ..... ....... .A.....T. .A.AA.A.. A.T.G.G. .AAA.A ..G..       1
   7 >A/Chile/88/2009/05/27                T........A...A ..... ....... .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       1
   8 >A/Chile/3819/2009/07/06              TG.......A...A ..... ......T .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       2
   9 >A/Chile/1586/2009/06/13              TG.......A...A ..... ......T .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       2
  10 >A/Chile/3019/2009/06/26              TG.......A...A ..... ......T .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       2
  11 >A/Chile/3361/2009/07/01              TG.......A...A ..... ....... .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       1
  12 >A/Chile/4438/2009/07/20              T........A...A ..... ....... .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       1
  13 >A/Chile/28/2009/05/23                T............A ..... ....... .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       1
  14 >A/Chile/3349/2009/07/01              T............A ..... .....A. .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       1
  15 >A/Chile/4064/2009/07/09              T............A ..... .....A. .A.....T. .A.AA.A.. AT..G... .AAA.A ..G..       2
  16 >A/Chile/31/2009/05/25                T............A ..... ....TA. .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       1
  17 >A/Chile/32/2009/05/25                T............A ..... ....TA. .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       2
  18 >A/Chile/3295/2009/06/30              T............A ..... .....A. .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       2
  19 >A/Chile/3935/2009/07/07              T............A ..... .....A. .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       2
  20 >A/Chile/3244/2009/06/30              T............A ..... .....A. .A.....T. .A.AA.A.. A...G... AAAA.A ..G..       1
  21 >A/Chile/4257/2009/07/13              T............A ..... .....A. .A.....T. .A.AA.A.. A...G... AAAA.A ..G..       2
  22 >A/Chile/36/2009/05/25                T.......TA...A ..... .....A. .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       1
  23 >A/Chile/56/2009/05/26                T.......TA...A ..... ....... .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       1
  24 >A/Chile/3056/2009/06/26              T........A...A ..... ....... .AG....T. .A.AA.A.. A...G... .AAATA ..G..       1
  25 >A/Chile/3123/2009/06/26              T.A..........A ..... ....... .AG....T. .A.AA.A.. A...G... .AAATA ..G..       1
  26 >A/Chile/1598/2009/06/15              T.A..........A ...A. ....... .A.....T. .A.AA.A.. A...G... .AAA.A ..GG.       1
  27 >A/Chile/3242/2009/06/30              T.A..........A ...A. ....... .A.....T. .A.AA.A.. A...G... .AAA.A ..GG.       2
  28 >A/Chile/1600/2009/06/15              T............A ..... ....... .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       1
  29 >A/Chile/40/2009/05/25                T............A ..... ..G.... .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       1
  30 >A/Chile/2362/2009/06/22              T............A ..... ..G.... .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       2
  31 >A/Chile/1599/2009/06/15              T............A ..... ..G.... .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       2
  32 >A/Chile/42/2009/05/25                T............A ..... ..G.... .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       1
  33 >A/Chile/19/2009/05/22                T............A A.... ....... .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       1
  34 >A/Chile/3553/2009/07/02              T............A A.... ....... .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       2
  35 >A/Chile/3905/2009/07/07              T............A A...A ....... .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       1
  36 >A/Chile/4406/2009/07/17              T............A A...A ....... .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       2
  37 >A/Chile/3760/2009/07/06              T............A A...A ....... .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       2
  38 >A/Chile/3467/2009/07/02              T............A A...A ....... .A.....T. .A.AA.A.. A...G... .AAA.A ..G..       1
  39 >A/Chile/4182/2009/07/10              T............A A.G.A ....... TA.....T. .A.AA.A.. A..GG... .AAA.A T.G..       2
  40 >A/Chile/4181/2009/07/09              T............A A.G.A ....... TA.....T. .A.AA.A.. A..GG... .AAA.A T.G..       2
  41 >A/Chile/2994/2009/06/26              T............A ..... ....... .A.....T. AA.AA.... A...G..C ..AA.A ..G..       1
  42 >A/Chile/2239/2009/06/19              T............A ..... ....... .A....GT. AA.AA.... A...G..C ..AA.A ..G..       1
  43 >A/Chile/180/2009/05/29               T............A ..... ....... .A....GT. AA.AA.... A...G..C ..AA.A ..G..       1
  44 >A/Chile/3220/2009/06/30              T............A ..... ....... .A.....T. .A.AA.... A...G... ..AA.A ..G..       2
  45 >A/Chile/2911/2009/06/25              T.....TA...G.A ..... ....... .A..TG.T. .AAAA.... A...G... ..AA.A ..G..       1
  46 >A/Chile/2851/2009/06/20              T.....TA...G.A ..... ....... .A..TG.T. .AAAA.... A...G... ..AA.A ..G..       2
  47 >A/Chile/2909/2009/06/25              T............A ..... ....... .A.....T. .A.AA.... A...G... ..AA.A ..G..       1
  48 >A/Chile/3586/2009/07/03              .............A ..... ...T... .A.....T. .A.AA.... A...G... ...A.A ..G..       2
  49 >A/Chile/3766/2009/07/06              ...CGC....A.GA .T... AA.T... .A.G...TT .A.AA.... A...GT.. ...A.A .TG.C       2
  50 >A/Chile/3375/2009/07/01              ...CGC....A.GA .T... AA.T... .A.G...TT .A.AA.... A...GT.. ...A.A .TG.C       2
  51 >A/Chile/3369/2009/07/01              .............A ..... ...T... .A.....T. .A.AA.... A...G... ...A.A ..G.C       1
  52 >A/Tk/Chile/28317-6504-3/2009/08/17   .............A ..... ...T... .A.....T. .A.AA.... AT..G... ...A.A ..G.C       2
  53 >A/Castro/JXP/2009/06/11              -------------- ..... ------- .A.....T. -------AT -------- ------ -----      19
  54 >A/Chile/8947/2009/05/17              -------------- ----- ------- .A..----- -------AT A...G... ------ -----      20
  55 >A/Chile/8949/2009/05/18              -------------- ----- ------- .A..----- -------AT A...G... ------ -----      20
  56 >A/Santiago/3827/2009/07/07           -------------- ----- ------- -A..----- -------AT ------.. ------ -----      23
  57 >A/Puerto Montt/Bio87/2009/06/19      -------------- ----- ------- .A..T..T. -------AT -------- ------ -----      22
  58 >A/Santiago/21579/2009/07/05          -------------- ----- ------- .A..----- -------AT A...G... ------ -----      21
  59 >A/Santiago/3221/2009/06/30           -------------- ----- ------- .A..----- .A.------ ------.. ------ -----      22
  60 >A/Chile/8886/2009/05/18              -------------- ----- ------- .A..----- -------AT A...G... ------ -----      20
  61 >A/Santiago/2009/2009/06/18           -------------- ----- ------- .A..----- -------AT ------.. ------ -----      23
  62 >A/Chile/9113/2009/05/19              -------------- ----- ------- ....----- -------AT ........ ------ -----      21
                                                                                                                         
---Index-----------------------------------CAGAATCGCGGAAG GGAGG GGACAGC CTAACAACC GGCGGGGGA GCCAACAT GGGGCG ACAAT        
-codon-position----------------------------2  1    2   2  2      22 11  2112   1  11   2 2  1  21 1   2  2  121          
                                           00000001111122 00112 0001112 000011111 000111111 00000011 000000 00000        
                                           01123490367911 46350 0592370 069911344 123122445 34457801 003456 03334        
                                           61227869527456 60746 8586737 953848403 090456890 12794965 683990 72681        
                                           87368995893733 13421 4103520 584308187 083618890 66192435 999290 30774

**gsgs** · May 2, 2011, 08:49 AM

Re: Sequences at Genbank!

Originally posted by gsgs View Post

no reassortments in humans reported AFAIK between
***(pH1N1) and other flu, e.g. H3N2.
Both strains circulated in USA this season simultaneously,
so there was ample opportunity.

But

in swine we have lots of reassortments.
Triple reassortment,classical swine, H1N2(2003),
H1N1,H3N2 all mixing with pH1N1

These may then jump to humans ...("mixing vessel")
with possible increased virulence or transmission.
It's just a great enhancement of virus evolution,
do we want that ?

****** segments reassorting into swine:

Code:

-----+--:HK/201/2010
+++++-++:THA/CU-SA43/2010
+++---++:IN/240218
-------+:Korea/4779
+++++-++:Korea/4940
++++--++:Korea/4941
+++++-++:THA/CU-SA412
+++++-++:THA/CU-SA432
+++-+-++:England/1382
-++---+-:NC/239108
+++-+-++:Argentina/CIP051-StaFeN2
------++:Korea/5008
+-+-+-++:MN/239106
+++++-++:Italy/116114
--+-+-++:MN/226128
----+-++:NC/226124
----+-++:NC/226125
----+-++:NC/226126
...-.-+.:SD/2
...-.-+.:SD/3
+++-+-.+:MN/A01047604
...-..++:Quebec/1259260
+++-+-++:Quebec/1265553
...-.-+.:SD/4
...-.-+.:SD/5
...-.-+.:SD/6
...-.-+.:SD/7

+:pH1N1
-:other
.: not available

updated list, reassorted swine with ****** and other segments

updated list, reassorted Sw with ****** and other segments

Code:

308 >A/******/index/2009-02-01

ommmmmmm
325:501,  0,  0,  4,  2,  2,  3,  2   A/Sw/QLD/09-02865-07/2009(H1N1/08/24

mmmmmomm
226:  3,  3,  6, 16,  0,462,  0,  3   A/Sw/Korea/4940/2010(H1N2/04/
328:  4,  2,  2,  5,  6,479,  6,  7   A/Sw/Italy/116114/2010(H1N2/06/01
340:  2,  3,  1,  4,  4, 99,  6,  3   A/Sw/Thailand/CU-SA412/2010(H1N1/04/
341:  2,  1,  4, 12,  6, 99,  6,  6   A/Sw/Thailand/CU-SA433/2010(H1N1/06/
342:  2,  2,  0,  4,  4,101,  3,  3   A/Sw/Thailand/CU-SA43/2010(H1N1/02/
343:  2,  3,  3,  4,  5,100,  5,  3   A/Sw/Thailand/CU-SA432/2010(H1N1/04/

mmmomomm
  6:  4,  3,  8,471,  4,468,  6,  5   A/Sw/Quebec/1265553/2010(H3N2/12/22
158:  3,  1,  4,248,  6,482,  3,  2   A/Sw/Argentina/CIP051-StaFeN2/2010(H1N2/05/
159:  4,  1,  1,236,  3,485,  7,  4   A/Sw/England/1382/2010(H1N2/04/13
227:  1,  0,  3,138,  0,469,  0,  3   A/Sw/Korea/4382/2009(H1N2/11/
306:  3,  1,  2,239,  3,220,  4,  1   A/Sw/Argentina/CIP051-BsAs76/2009(H1N1/10/

momomomm
128:  5, 58,  3,241,  4,466,  3,  4   A/Sw/Minnesota/239106/2010(H1N2/05/05

mmmooomm
224:  2,  3,  2, 99, 50,474,  3,  3   A/Sw/Indiana/240218/2010(H1N2/02/21
225:  3,  0,  3, 12, 52,472,  0,  3   A/Sw/Korea/4941/2010(H1N2/04/

oomomomm
 76: 69, 38, 11, 69, 19,201,  3,  4   A/Sw/Minnesota/226128/2010(H1N1/09/08

ommooomo
157: 58,  3,  1,239, 50,474,  3, 51   A/Sw/North Carolina/239108/2010(H1N2/04/21

oomomomo
  8: 57, 63,  1,469,  2,474,  3, 54   A/Sw/Minnesota/239105/2009(H3N2/11/24

oooomomm
233: 55, 60, 96,244,  8,473,  4,  7   A/Sw/North Carolina/226125/2010(H1N2/09/08
234: 55, 59, 65,244,  8,474,  4,  7   A/Sw/North Carolina/226126/2010(H1N2/09/08
235: 55, 60, 65,244,  8,474,  4,  7   A/Sw/North Carolina/226124/2010(H1N2/09/08

oooomoom
228: 68, 58, 62,109,  4,462,100,  3   A/Sw/Korea/4456/2009(H1N2/11/

oooooomm
230: 68, 58, 62,109, 52,462,  0,  3   A/Sw/Korea/5008/2010(H1N2/05/

ooooomoo
168: 53, 55, 56,258, 48,  2,127, 63   A/Sw/Hong Kong/201/2010(H1N1/01/07

ooooooom
231: 68, 58, 62,109, 52,462,100,  3   A/Sw/Korea/4383/2009(H1N2/11/
232: 68, 54, 62,134, 73,462,118,  3   A/Sw/Korea/4779/2010(H1N2/03/

omoooooo
216: 66,  3, 68,134, 73,469,100, 70   A/Sw/Korea/4381/2009(H1N2/11/

???o?om?
  9:---,---,---,469,---,473,  6,---   A/Sw/Iowa/A0109034/2010(H3N2/11/16
 10:---,---,---,469,---,473,  6,---   A/Sw/Iowa/A0109035/2010(H3N2/11/16
 74:---,---,---, 68,---,205,  5,---   A/Sw/South Dakota/7/2011(H1N1/02/28
 75:---,---,---, 65,---,201,  5,---   A/Sw/Minnesota/A0109101/2010(H1N1/11/17
129:---,---,---,240,---,469,  5,---   A/Sw/South Dakota/2/2010(H1N2/11/23
130:---,---,---,242,---,469,  5,---   A/Sw/Iowa/A0109071/2010(H1N2/11/16
132:---,---,---,242,---,471,  3,---   A/Sw/South Dakota/4/2010(H1N2/12/28
134:---,---,---,240,---,469,  5,---   A/Sw/South Dakota/3/2010(H1N2/11/23
135:---,---,---,247,---,467,  5,---   A/Sw/South Dakota/5/2011(H1N2/02/25
136:---,---,---,243,---,466,  3,---   A/Sw/South Dakota/6/2011(H1N2/02/25

???o??mm
  5:---,---,---,465,---,---,  7,  5   A/Sw/Quebec/1259260/2010(H3N2/12/20

mmmomo?m
131:  5,  7,  5,242, 14,469,---,  9   A/Sw/Minnesota/A01047604/2010(H1N2/12/07

???o?mm?
315:---,---,---, 73,---,  2,  3,---   A/Sw/Iowa/44837-1/2009(H1N1/11/08

40 viruses now, 18 reassortment-variants

one virus with European swine HA and also a ****** segment:
A/Sw/HK/201/2010/01/07(H1N1)

other segments are triple-reassortant (1998,USA)

**mixin** · May 5, 2011, 04:25 AM

Re: Sequences at Genbank!

On May 3, the CDC released another group of 35 US isolates at GISAID. There are 3 from the Chihuahua clade that includes T462A and A489C.

Almost all were characterised and all of those were California/07-like; none were designated as low reactors.

I didn't see any that were oseltamivir resistant.

**gsgs** · May 11, 2011, 11:41 AM

Re: Sequences at Genbank!

below the mutation table of Mexico genomes plus genomes
from a substrain (call it pre-chi) that
appeared in Sept.2009 and which seems to be the precursor
of the current "Chi" (Chihuahua,Ecuador,USA-2011) strain.
At least in segments 1,2,3,8.

This substrain is specified by the 11 Cancun mutations plus
A1381G(1),A1674G(1)
T1760G(2),C1955T(2),T2241C(2)
T1305C(3)
C1434T(5)
G724A(8)

it seems that segments 4,5,6,7 may come from another virus
by reassortment.
I.e. segment 4 was first seen in A/Germany/AF2207/2010/01/19
with markers A142C,G536A,G607A,C681T,A957G,G1080A

you see another obvious reassortment in the Canada viruses #95-#100
1,3,7,8:original,2:pre-chi,4,5,6:Cancun
the blocks in segment 1(#59-60),4(#73-75,56),7(sevral CAGT)
could be sequencing errors

Code:

                                        000000000000000000000000000000000000001111111111111111111222222 00000000000000000000001111111111111111111111111112222222 000000000000000000000011111111111111111111111111122222 000000000000000000000000000000000000000011111111111111111111 0000000000000000000011111111111111 0000000000000000000000001111111111 00000000000000 00000000000000000000000 
                                        000001111111112233444444455555555567880011112223445666789001111 00122233334566788888990000011122224455566777789990111222 000122344446677788888900001123334455666777888999900111 011112222222333444555666666677788888899900111122222222233444 0223333445677888899911111112223334 0111222222223345666778990011122333 00003344456667 01112333344456666677778 
                                        678991133466771469335568801123488956781702371568117778197581368 35526656895747103458585557912511560103624026700597289045 348467928991846812688602691590120405278349236444457044 403461455569569033346044569911313668914918577812222337888057 3490377263509445945701345664895573 2003334444581910145245255967937224 00010333910596 73892246614833445902341 
                                        351690458412679590340950676921623478958730738131097456399595231 41624746496128777452743897572828465460308120911556443217 704713630282112933758924880945921307681714406468950336 565576347968209956690907855649986278885940512226789018123853 6981325654452395433598435478936744 6232012789736644561129540769408398 68906956200560 55997307957624391834884 
-codon-position-------------------------     2    2 2  2  12            1     1 21     1  2 1   2 1 2   1          1     1     2   1      11    1  2 122       1 11               1     1   11 22     11 1     212   11  1 12  221211  1 12 2 12122  21221  1      12  2 12 1  2 1     11             12 22      2  1   2 1 2 212 211    1 1111  22      1  2 1   1   1 1    12211 1  1111 211 11 
---Index--------------------------------TGTAGGGCAGGACAAAACGTCTTGGAGGAGGGGTACGGAGGCGGATCACGAAATATAGTCAGG ACGTTAGATAGGGGGTGCTAGTAAATACAGTGCGATGCTATATTTAACCCGCGGTC AGGGCGAGCCGAACCGTCAGTCCCGGCGGTGTGGGCTCAGACCAATTTAGCGCA AGCCGTTACCCTCGAAGAGTGTGTTGCAGATCGCCTACCACGAGACTCAGTAGAAACCCG ACGGTCTCTCTGCTTAGCCGACCGCAGGGGGCCC CTATGATGTGCAGCCTGAGGAGACAGTCGAACAA TTTCGGTCGTGACT TAATCGCACATAGCCGGAGGCTA 
   1 >A/******/index/2009/02/01         ............................................................... ........................................................ ...................................................... ............................................................ .................................. .................................. .............. .......................        2      0 ,      0      0       1:>A/******/index/2009/02/01         
   2 >A/swine/4/Mx/2009/04/             ............................................................... ..........................................C............. ...................................................... ......................A......R.......................G...... ............T..................... .NG............................... .............C .......................       48      8 ,     43      8       2:>A/swine/4/Mx/2009/04/             
   3 >A/Mx/InDRE4114/2009//             ............................................................... .........................................G.............. ...................................................... ............................................................ .................................. .................................. .............. .......................        9      1 ,      7      1       3:>A/Mx/InDRE4114/2009//             
   4 >A/MxCity/018/2009/05/10           ...................................T........G.................. ....................................................A... .A.................................................... ............................................................ .................................. .................................. .............. .......................       13      4 ,     11      4       4:>A/MxCity/018/2009/05/10           
   5 >A/MxCity/009/2009/05/12           ..............................A.........A...................... ........................................................ ...................................................... .............................................T.............. .................................. ..........................C....... .............. .......................        8      4 ,      6      4       5:>A/MxCity/009/2009/05/12           
   6 >A/MxCity/017/2009/05/09           ..............................A................................ .......................G................................ ...................................................... ............................................................ .................................. .................................. .............. .......................       16      2 ,     14      2       6:>A/MxCity/017/2009/05/09           
   7 >A/Mx/InDRE13495/2009/04/29        ..............................A..........T..................... ........................................................ ...................................................... ............................................................ .................................. .................................. .............. .......................       12      2 ,     10      2       7:>A/Mx/InDRE13495/2009/04/29        
   8 >A/Mx/InDRE4115/2009//             ...............G............................................... ........................................................ .................A.................................... ............................................................ .................................. .................................. .............. .......................        4      2 ,      2      2       8:>A/Mx/InDRE4115/2009//             
   9 >A/Mx/4115/2009/04/07              ...............G............................................... ........................................................ .................A.......................T............ ............................................................ .................................. .................................. .............. .......................        5      3 ,      3      3       9:>A/Mx/4115/2009/04/07              
  10 >A/Mx/InDRE4487/2009/04/14         ...............G............................................... ........................................................ .................A.................................... .............................G.............................. .................................. .................................. .............. .......................        5      3 ,      3      3      10:>A/Mx/InDRE4487/2009/04/14         
  11 >A/Mx/InDRE13494/2009/04/29        ............................................................... ........................................................ .................................A................T... ............................................................ .................................. .................................. .............. .......................       14      2 ,     12      2      11:>A/Mx/InDRE13494/2009/04/29        
  12 >A/Mx/InDRE13547/2009/04/27        ............................................................... ........................................................ ...................................................... .........................A.................................. ..A.....C......................... ..........T....................... .............. .......................       13      4 ,     11      4      12:>A/Mx/InDRE13547/2009/04/27        
  13 >A/MxCity/013/2009/05/09           ............................................................... ........................................................ ...................................................... .........................................................T.. ..A....................A.......... ............A.......G............. .............. .......................        9      5 ,      7      5      13:>A/MxCity/013/2009/05/09           
  14 >A/MxCity/007/2009/05/09           ............................................................... ...................GA.........C......................... ...................................................... .........................................................T.. ..A....................A.......... ............A.......G............. .............. ............A..........       16      9 ,     14      9      14:>A/MxCity/007/2009/05/09           
  15 >A/Mx/InDRE13555/2009/04/29        ............................................................... ...................GA.........C......................... ...................................................... .........................................................T.. ..A....................A.......... ............A.......G............. .............. .......................       13      8 ,     11      8      15:>A/Mx/InDRE13555/2009/04/29        
  16 >A/Mx/InDRE13551/2009/04/28        ............................................................... ....................................A................... ................................A..................... .........................................................T.. ..A....................A.......... ............A.......G............. .............. .......................       13      7 ,     11      7      16:>A/Mx/InDRE13551/2009/04/28        
  17 >A/MxCity/023/2009/05/01           ............................................................... ........................................................ ...................................................... .........................................................T.. ..A....................A.......... ............A.......G............. ............T. .......................       11      6 ,      9      6      17:>A/MxCity/023/2009/05/01           
  18 >A/MxCity/001/2009/05/07           ............................................................... ........................................................ ...................................................... ................................A........................T.. ..A....................A.......... ............A.......G..T.......... ............T. .......................       12      8 ,     10      8      18:>A/MxCity/001/2009/05/07           
  19 >A/MxCity/021/2009/05/01           ............................................................... ........................................................ ...................................................... .........................................................T.. ..A....................A.......... ............A.......G..T.......... ............T. .......................       11      7 ,      9      7      19:>A/MxCity/021/2009/05/01           
  20 >A/MxCity/022/2009/05/02           ............................................................... ........................................................ ...................................................... .........................................................T.. ..A....................A....R..... ............A.......G..T.......... ............T. .......................       11      8 ,      9      8      20:>A/MxCity/022/2009/05/02           
  21 >A/MxCity/006/2009/05/09           ............................................................G.. ........................................................ ...................................................... .........................................................T.. ..A....................A....A..... ............A.......G..T.......... ............T. .......................       14      9 ,     12      9      21:>A/MxCity/006/2009/05/09           
  22 >A/MxCity/003/2009/05/08           .......................................................Y....G.. ........................................................ ...................................................... .........................................................T.. ..A....................A....A..... ............A.......G..T.......... ............T. .......................       15     10 ,     13     10      22:>A/MxCity/003/2009/05/08           
  23 >A/MxCity/020/2009/04/30           ............................................................G.. ........................................................ ...................................................... .........................................................T.. ..A....................A....A..... ............A.......G..T.......... ............T. .......................       12      9 ,     10      9      23:>A/MxCity/020/2009/04/30           
  24 >A/MxCity/008/2009/05/10           .....................C......................................... ........................................................ ...................................................... .........................A...............................T.. ..A....T...............A.......... ............A.......G............. .............. .......................       15      8 ,     13      8      24:>A/MxCity/008/2009/05/10           
  25 >A/MxCity/002/2009/05/08           ......................................................G........ ........................................................ ...................................................... .........................................................T.. ..A....................A.......... ............A.......G............. .............. .......................       12      6 ,     10      6      25:>A/MxCity/002/2009/05/08           
  26 >A/Mx/4604/2009/04/19              ............................................................... ........................................................ ...................................................... .........................................................T.. ..A....................A.......... ............A.......G............. .............. .......................       11      5 ,      9      5      26:>A/Mx/4604/2009/04/19              
  27 >A/Mxcity/CIA9/2009/05/16          .............................................................A. ........................................................ ........................................C............. ............................................................ ..A....................A...A...... ............A.......G............. .............. ............A..........       15      8 ,     13      8      27:>A/Mxcity/CIA9/2009/05/16          
  28 >A/MxCity/011/2009/05/09           ............................................................... ........................................................ ...................................................... .........................................................T.. ..A....................A.......... ..........T.A.......G...........C. .............. .......................       15      7 ,     13      7      28:>A/MxCity/011/2009/05/09           
  29 >A/MxCity/024/2009/04/30           ............................................................... ....................................................A... ...................................................... ........................................T................T.. ..A....................A.......... ............A.......G...........C. .............. .......................       16      8 ,     14      8      29:>A/MxCity/024/2009/04/30           
  30 >A/Mx/4603/2009/04/19              ............................................................... ........................................................ ...................................................... .........................................................T.. ..A....................A.......... ............R.......G...........C. .............. .......................        9      6 ,      7      6      30:>A/Mx/4603/2009/04/19              
  31 >A/MxCity/014/2009/05/09           ............................................................... ........................................................ ...................................................... ..................A......................................T.. ..A....................A.......... ............A.......G...........C. .............. .......................       12      7 ,     10      7      31:>A/MxCity/014/2009/05/09           
  32 >A/MxCity/019/2009/04/30           ............................................................... ........................................................ ...................................................... .........................................................T.. ..A....................A.......... ............A.......G...........C. .............. .......................       11      6 ,      9      6      32:>A/MxCity/019/2009/04/30           
  33 >A/Mx/4635/2009/04/20              ............................................................... ........................................................ ...................................................... .........................................................T.. ..A....................A.......... ............A.......R...........C. .............. -----------------------       82     29 ,      9      6      33:>A/Mx/4635/2009/04/20              
  34 >A/MxCity/012/2009/05/09           .................................................A............. ........................................................ ...................................................... .........................................................T.. ..A....................A.......... ............A.......G...........C. .............. .............T.......C.       17      9 ,     15      9      34:>A/MxCity/012/2009/05/09           
  35 >A/MxCity/010/2009/05/09           ............................................................... ........................................................ ...................................................... .........................................................T.. ..A....................A.......... ............A.......G...........C. .............. .......................       12      6 ,     10      6      35:>A/MxCity/010/2009/05/09           
  36 >A/MxCity/WR1087T/2009/06/19       .....CA...........................G...........................A ........................................................ ...................................................... ..T......................................................... G.A..................T.A.......... ............A.......G...........C. .............. .......................       25     12 ,     23     12      36:>A/MxCity/WR1087T/2009/06/19       
  37 >A/Mx/48N/2009/04/25               ............................................................... ...........A............................................ ........................................C............. ...A.C...................................................... .....................T............ .......A...G.................G.... .............. .......................       11      8 ,      9      8      37:>A/Mx/48N/2009/04/25               
  38 >A/Mx/47N/2009/04/25               ............................................................... ...........A............................................ ........................................C............. ...A.C...................................................... .....................T............ .AG....A...G.................G.... .............. .......................       15     10 ,     13     10      38:>A/Mx/47N/2009/04/25               
  39 >A/MxCity/015/2009/05/09           ............................................................... ...........A............................................ ...........................A............C............. ...A........................................................ .....................T............ ...........G...................... .............. .......................       14      6 ,     12      6      39:>A/MxCity/015/2009/05/09           
  40 >A/MxCity/025/2009/05/01           ...........................................................T... ...........A............................................ ........................................C............. ...A........................................................ .....................T............ ...........G...................... .............. .......................       14      6 ,     12      6      40:>A/MxCity/025/2009/05/01           
  41 >A/Mx/4108/2009/04/03              ............................................................... ........................................................ ........................................C............. ............................................................ .....................T............ .................................. .............. .......................        8      2 ,      6      2      41:>A/Mx/4108/2009/04/03              
  42 >A/MxCity/026/2009/05/02           ..................................................G............ .................................A...................... ..........................T.............C............. .........A.................................................. .....................T............ .................................. .............. .......................       11      6 ,      9      6      42:>A/MxCity/026/2009/05/02           
  43 >A/Mx/4269/2009/04/15              ..................................................G............ ........................................................ ........................................C............. ............................................................ .....................T............ .................................. .............. .......................       11      3 ,      9      3      43:>A/Mx/4269/2009/04/15              
  44 >A/MxCity/004/2009/05/08           ..................................................G............ ...........................................C............ ........................................C............. ............................................................ .....................T............ .............................G.... .............. .......................       10      5 ,      8      5      44:>A/MxCity/004/2009/05/08           
  45 >A/Mx/4486/2009/04/14              ..................................................G............ ........................................................ ........................................C............. ........................................TA...............T.. .....................TT........... .............T.................... .............. .......................       11      8 ,      9      8      45:>A/Mx/4486/2009/04/14              
  46 >A/MxCity/005/2009/05/08           ..............G................................................ ................................................T....... ........................................C............. ............................................................ .....................T............ .................................. .............. .......................       14      4 ,     12      4      46:>A/MxCity/005/2009/05/08           
  47 >A/Mx/LaGloria-3/2009/04/03        ....R.........G................................................ ................................................T....... .....................T.........C........C............. .............................G.............................. ...R.................T..Y.R....... .AG............................... .............. ..........C............       16     14 ,     14     14      47:>A/Mx/LaGloria-3/2009/04/03        
  48 >A/Mx/LaGloria-4/2009/03/24        ....R.........G................................................ ................................................T....... .....................T.........C........C............. .............................G.............................. ...R.................T..Y.R....... .N................................ .............. ..........C............       21     13 ,     17     13      48:>A/Mx/LaGloria-4/2009/03/24        
  49 >A/Mx/LaGloria-8/2009/03/25        ....R.........G................................................ ................................................T....... .....................T.........C........C............. .............................G.............................. .....................T............ .CG............................... .............. ..........C............       14     11 ,     12     11      49:>A/Mx/LaGloria-8/2009/03/25        
  50 >A/MxCity/WR1306N/2009/09/02       .....C.................................A....G................A. ........................................................ ..........A..............................T..........T. .................G....A.A..............................G.T.. ..A....................A...A...... ............A.......G............. ........A.A... .......G.............C.       34     21 ,     32     21      50:>A/MxCity/WR1306N/2009/09/02       
  51 >A/MxCity/WR1100N/2009/06/29       .....CA......................................................A. ........................................................ ...................................................... ........................A................................T.. ..A....................A...A...... ............A.......G............. .....A..A.A... .......G...............       19     14 ,     17     14      51:>A/MxCity/WR1100N/2009/06/29       
  52 >A/MxCity/WR1765N/2009/11/19       .....C.....G.................................................A. ........................................C........A...... .A........A..........................................C .....C..................A..................A.............T.. ..A..T.................A...A....T. ............A.......G.......A..... ........A.A... .......G...............       36     23 ,     34     23      52:>A/MxCity/WR1765N/2009/11/19       
  53 >A/MxCity/WR1668T/2009/09/23       .....CA.....................................G................A. ........................................C........A...... .A.A......................A..................GCGT....C ........................A...A..............A.............T.. ..A..T.................A...A....T. ............A.......G.......A..... ........A.A... .......G...............       46     29 ,     44     29      53:>A/MxCity/WR1668T/2009/09/23       
  54 >A/MxCity/WR1695N/2009/10/01       .....CA.......................A.............G................A. .................................................A...... ...................................................... .........................................................T.A ..A....................A...A....T. ............A.......G............. ........A.A... C......G...............       33     18 ,     31     18      54:>A/MxCity/WR1695N/2009/10/01       
  55 >A/MxCity/WR1301N/2009/09/12       .....C............AG................A.......G.........G........ .................TG..................................... G............A...........A......T.....T............... TA..A.....A..............................................TT. ..A....T.........T.....A.....A.G.. ............A.T.....G..........T.. .............C .......................       36     30 ,     34     30      55:>A/MxCity/WR1301N/2009/09/12       
  56 >A/MxCity/WR1307N/2009/09/14       .....C..............................A.......G.........G........ .................T............................G......... G............A...........A......T.....T............... TA..A.....A....................................GCCAGT....TT. ..A....T.........T.....A.....A.G.. ............A.T.....G..........T.. .............C .......................       39     34 ,     37     34      56:>A/MxCity/WR1307N/2009/09/14       
  57 >A/MxCity/WR1747N/2009/11/09       .....C.....G...........A..............G...A.G..........C.....A. ..A...............................G..............A...... ..A..A..............C.....................TG.......... ........................A..TA.......G.....G..............T.. ..A........A......A....A...A...... ............A..C....GA...........G CAGT....A.A... ...C...G.G........A....       46     42 ,     44     42      57:>A/MxCity/WR1747N/2009/11/09       
  58 >A/MxCity/WRAIR1781T/2009/11/10    .....C.................A..................A............C.....A. ..A.CG..........ATG...............G..............A...... ..A..A..............C.....................TG.......... ........................A..TA.......G.....G..............T.. ..A........A......A....A...A...... ............A..C....GA...........G ........A.A... ...C...G.G........A....       42     40 ,     40     40      58:>A/MxCity/WRAIR1781T/2009/11/10    
  59 >A/MxCity/WRAIR1691N/2009/09/23    CACGA..TGAA.........TCC.ATAACA..............G................A. ........................................................ ...................................................... ........................A................................T.. ..A....................A...A...... ............A.......G............. ........A.A... .......G...............       35     30 ,     33     30      59:>A/MxCity/WRAIR1691N/2009/09/23    
  60 >A/MxCity/WRAIR1679N/2009/09/23    CACGA.ATGAA.........TCC.ATAACA.....T...AA...G..G...G.........A. ......................................A................. ..............................T...................T.T. ........T...............A................................T.. ..A.....C...........G..A...A...... ............A.......G............. ........A.A... .......G...........A...      102     44 ,    100     44      60:>A/MxCity/WRAIR1679N/2009/09/23    
  61 >A/MxCity/WR1706T/2009/09/18       .....C.....G....................A.............................. .............................A...................A....C. ......................................C..........A.... ....................A...A.T............G................AT.. ..A....................A.......... ............A.......G...........C. CAGT.......... .......................       43     23 ,     41     23      61:>A/MxCity/WR1706T/2009/09/18       
  62 >A/MxCity/WR1701T/2009/09/24       .....CA..........................C...........C...............A. ........................................................ ....T.................TT..A......................A.... ................A...A...A................................T.. ..A....................A...A...... ............A.......G.....C....... CAGT.......... ....................A..       32     25 ,     30     25      62:>A/MxCity/WR1701T/2009/09/24       
  63 >A/MxCity/WR1692T/2009/09/22       .....CA..........................C..........GC...............A. ................ATG...G......A.................T.A...... ....T.G...............TT..A..................GCGTA.... ................A...A...A................................T.. ..A....................A...A...... ............A.......G.....C....... ........A.A... .......G...........A...       42     37 ,     40     37      63:>A/MxCity/WR1692T/2009/09/22       
  64 >A/MxCity/WR1696T/2009/09/17       .....C............AG.............C.T........GC...............A. .......G..............G......A.................T.A....C. ......G...............TT..A......................A.... ................A...A...A.......A........................T.. ..A....................A...A..A..T ............A.......G.....C....... CAGT....A.A... ..G...........T....A...       50     41 ,     47     41      64:>A/MxCity/WR1696T/2009/09/17       
  65 >A/MxCity/WR1697T/2009/09/15       .....CA.....................................G..G...G.....A...A. ...........................................G...T.A....C. ......................TT..A........................... .................G......A................................T.. ..A....................A...A.....T ............A.......G....A........ CAGT....A.A... .......G...........A...       41     32 ,     39     32      65:>A/MxCity/WR1697T/2009/09/15       
  66 >A/MxCity/WR1708T/2009/10/09       ................G....................A.........G...G.........A. C.....A...A...A............................G..GT.A...AC. ......................TT..A..CT....T.T................ ......C.....T...........A..................A.............T.. ..A...................TA...A.....T ............A.......G............. CAGT....A.A... .G.....G...........AT..       56     44 ,     54     44      66:>A/MxCity/WR1708T/2009/10/09       
  67 >A/MxCity/WR1090N/2009/10/22       ............G..................................G...G.C.......A. ................................A..........G..GT.A....C. .............................C........................ .A......................A........T.......A...............T.. ..A....................A.C.A.....T ............A.......G............. CAGT....A.A... .......GA.......A..A...       44     34 ,     42     34      67:>A/MxCity/WR1090N/2009/10/22       
  68 >A/MxCity/WR1673N/2009/10/05       .....C.....G....................A..............G.A.G.........A. ...............................................T.A...... .......................-.....C...A.................A.. ...................C....A................................T.. ..A....................A...A.....T .....T......A.....A.G............. ........A.A... .......G...........A...       46     28 ,     40     27      68:>A/MxCity/WR1673N/2009/10/05       
  69 >A/MxCity/WR1704T/2009/09/25       .....C......................................G.AG...G.........A. ...........................................G...T.A....C. .............................C.........T.............. ........T...........A...A.T.....A.......................AT.A ..A...C.............G..A...A.....T ............A.......G............. ........A.A... .......G...........A...       37     32 ,     35     32      69:>A/MxCity/WR1704T/2009/09/25       
  70 >A/MxCity/WR1687T/2009/09/23       .....CA.....................................G.AG...G.........A. ..............A............................G...T.A...... .............................C.........T.......GT..... ........T...............A.......A.......................AT.. ..A...C.............G..A...A.....T ............A.......G............. ........A.A... .......G...........A...       36     32 ,     34     32      70:>A/MxCity/WR1687T/2009/09/23       
  71 >A/MxCity/WR1683T/2009/09/25       .....C......G.....AG.............C..........G.AG...G.........A. ..............A.AT.....G.....A.................T.A...... ......................TT..A........................A.. ................A.......A.......A....T..................AT.. ..A...C.............G..A...A.....T ............A.......G............. ........A.A... .......G...........A...       46     39 ,     44     39      71:>A/MxCity/WR1683T/2009/09/25       
  72 >A/MxCity/WR1675T/2009/09/23       .....C........................................AG...G.........A. ......................G......A................GT......C. ......................TT..A......................A.... ...........C............A.......A.......................AT.. ..A...C.............G..A...A.....T ............A.......G............. ........A.A... .......G...........A...       34     31 ,     32     31      72:>A/MxCity/WR1675T/2009/09/23       
  73 >A/MxCity/WR1297N/2009/09/03       .....CA.....................................G..G...G.........A. .T.....G........ATG........................G...T......C. ........T....................C........................ ........................A......................GCCAGT....T.. ..A....................A...A.....T ............A.......G....A........ ........A.A... ..G....G......T....A...       40     37 ,     38     37      73:>A/MxCity/WR1297N/2009/09/03       
  74 >A/MxCity/WR1310N/2009/09/09       .....C.........................................G...G.........A. .......G...................................G...T......C. ........T....................C........................ ........................A......................GCCAGT....T.. ..A....................A...A..A..T ........C...A.......G....A........ ........A.A... ..G....G......T....A...       35     33 ,     33     33      74:>A/MxCity/WR1310N/2009/09/09       
  75 >A/MxCity/WR1311T/2009/09/10       .....C.........................................G...G.........A. .......G.........TG........................G...T......C. ........T....................C........................ ........................A......................GCCAGT....T.. ..A....................A...A..A..T ........C...A.......G....A........ ........A.A... ..G....G......T....A...       38     35 ,     36     35      75:>A/MxCity/WR1311T/2009/09/10       
  76 >A/MxCity/WR1308T/2009/09/04       .....C......................................G..G...G.........A. .......G........AT.........................G..........C. ........T....................C........................ ........................A................................T.. ..A....................A...A.....T ............A.......G....A........ ........A.A... ..G....G......T....A...       29     27 ,     27     27      76:>A/MxCity/WR1308T/2009/09/04       
  77 >A/MxCity/WR1312N/2009/09/10       .....C.........................................G...G.........A. .......G.........T.........................G...T......C. ........T....................C........................ ........................A................................T.. ..A....................A...A..A..T ........C...A.......G....A........ ........A.A... ..G....G......T....A...       30     28 ,     28     28      77:>A/MxCity/WR1312N/2009/09/10       
  78 >A/MxCity/WRAIR1752N/2010/01/26    ...............................................G...G........... ...........................................G...T......C. ...........................A.C........................ ..T.....................A..................A.............T.. ..A....................A.C.A.....T ............A.......G....A........ ........A.A... .......G...........A...       42     23 ,     40     23      78:>A/MxCity/WRAIR1752N/2010/01/26    
  79 >A/MxCity/WRAIR1773T/2010/01/25    .....C.........................T...............G.............A. ....CG....A.A..............................G...T......C. .......A...G.................C........................ ..................A.....A................................TT. ..A....................A...A...... ............A.......G............. ........A.A... .......G...........A...       45     27 ,     43     27      79:>A/MxCity/WRAIR1773T/2010/01/25    
  80 >A/MxCity/WRAIR1786T/2009/12/01    .....C...................................T.A...G...G.........A. ....CG........A............................G...T..TT..C. ............G.T.C..T.........C....A.C.......G......... .............A..........A.............T..................T.. ..A....................A...A.....T ............A.......G...G......... ........A.A... .......G...........A...       39     37 ,     37     37      80:>A/MxCity/WRAIR1786T/2009/12/01    
  81 >A/MxCity/WRAIR1779T/2009/12/01    .....C...................................T.A...G...G.........A. ....CG........A............................G...T..TT..C. ............G.T.C..T.........C....A.C.......G......... .............A.......C..A.............T..................T.. ..A....................A...A.....T ............A.......G...G......... ........A.A... .......G...........A...       40     38 ,     38     38      81:>A/MxCity/WRAIR1779T/2009/12/01    
  82 >A/MxCity/WR1762T/2009/11/03       .....C.................A..............G.....G..G...G.........A. .........G....A..................................AT...C. ............G.T.C..T..............A.C.......G......... .............A.......C..A................................T.. ..A....................A...A.....T ............A.......G...G......... CAGT....A.A... .......G...........A...       40     38 ,     38     38      82:>A/MxCity/WR1762T/2009/11/03       
  83 >A/CA/VRDL129/2009/12/30           ...............................................G...GG......T.A. ......A........C......................C....G...T......C. ..................G................................... .......................CA..............................G.T.. ..A....................A...A.....T ............A.......G............. ........A.A... .......G...........A...       34     26 ,     34     26      83:>A/CA/VRDL129/2009/12/30           
  84 >A/CA/VRDL120/2009/12/15           ...............................................G...GG........A. ........C......C......................C....G...T......C. .......A....G.....G..........C........................ .......................CA................................T.. ..A....................A...A.....T ............A.......G............. ........A.A... .......G.........G.A...       36     28 ,     36     28      84:>A/CA/VRDL120/2009/12/15           
  85 >A/CA/VRDL92/2009/10/17            ...............................................G...G.........A. .....................A.....................G...T......C. .A...........................C........................ ........................A...................G............T.. ..A....................A...A.....T ............A.......G............. ........A.A... .......G...........A...       35     22 ,     35     22      85:>A/CA/VRDL92/2009/10/17            
  86 >A/CA/VRDL98/2009/10/29            ...............................................G...G......CT.A. .....................A...C.................G...T......C. .............................C........................ .......G................A...................G.........G..T.. ..A......A.............A...A.....T ............A.......G............. ........A.AG.. .......G...........A...       30     28 ,     30     28      86:>A/CA/VRDL98/2009/10/29            
  87 >A/CA/VRDL128/2009/12/22           ...............................................G...G.........A. ..A........................................G...T......C. .............................C........................ ........................A.........T..........T...........T.. ..A....................A.C.A.....T ............A.......G............. ........A.A... ....A..GA..........A...       35     25 ,     35     25      87:>A/CA/VRDL128/2009/12/22           
  88 >A/CA/VRDL110/2009/11/24           ...............................................G...G.........A. ..A..............................A.......G.G...T......C. .............................C........................ ........................A.........T..........T...........T.. ..A................A...A.C.A.....T ............A.......G............. ........A.A... ....A..GA..........A...       35     28 ,     35     28      88:>A/CA/VRDL110/2009/11/24           
  89 >A/CA/VRDL7/2010/02/01             ...............................................G...G....G....A. ...........................................GC..T......C. .........T...................C........................ ........................A................................T.. ..A............G.......A...A.....T ............A.......G....A........ ........A.A... .......G...........A...       36     24 ,     36     24      89:>A/CA/VRDL7/2010/02/01             
  90 >A/CA/VRDL6/2010/02/02             ...............................T...............G.............A. .T........A.AA.............T...............G...T......C. ...........G................AC........................ ......C.......G...A.....A..........C.....................T.. ..A.C..................A...A...... ......A.....A...A...G............. ........A.A... .......G.....T.....A...       39     33 ,     39     33      90:>A/CA/VRDL6/2010/02/02             
  91 >A/CA/VRDL4/2010/02/08             ...............................T...............G.....C.......A. ..........A..A.............T...............G...T......C. ...........G.................C........................ ......C.......G...A.....A..........C.....................T.. ..A.C..................A...A...... ......A.....A...A...G............. ........A.A... C......G...........A...       46     31 ,     46     31      91:>A/CA/VRDL4/2010/02/08             
  92 >A/Taipei/WR1472T/2009/10/21       .....C..............................A..........G...G.........A. ......................G........A.......G..CG...T.A....C. .............................C........................ ...........C............A................................T.. ..A....................A...A.....T .....T......A.......G............. CAGT....A.A... .......G...........A...       55     32 ,     49     32      92:>A/Taipei/WR1472T/2009/10/21       
  93 >A/Ontario/26184/2009/09/29        ...............................................G...G.........A. ...........................................G...T......C. .............................C........................ ........................A................................T.. G.A....................A.C.A.....T ....A.......A.......G............. ........A.A... .......GA..G.......A...       28     24 ,     28     24      93:>A/Ontario/26184/2009/09/29        
  94 >A/Ontario/29801/2009/10/19        ...............................................G...G.........A. .....................................T.....G...T......C. ........................A....C........................ ........................A................................T.. ..A....................A...A...... .........A..A.......G.G........... ........A.A... .......G...........A...       28     22 ,     28     22      94:>A/Ontario/29801/2009/10/19        
  95 >A/CanadaON/RV2890/2009/09/24      ............................................................... .......G...................................G...T......C. ...................................................... ........................A................................T.. ..A....................A...A...... ............A.......G....A........ .............. .......................       20     12 ,     15     12      95:>A/CanadaON/RV2890/2009/09/24      
  96 >A/CanadaAB/RV2854/2009/09/06      ............................................................... ...C........................C..............G...T......C. ...................................................... ........................A.....C..........................T.. ..A........A.C.........A...A...... ...C........A.......G............. .............. .......................       21     16 ,     16     16      96:>A/CanadaAB/RV2854/2009/09/06      
  97 >A/CanadaON/RV2887/2009/10/15      ............................................................... ...C........................C..............G...T......C. ...................................................... ........................A.....C..........................T.. ..A........A.C.........A...A...... ...C........A.......G............. .............. .......................       21     16 ,     16     16      97:>A/CanadaON/RV2887/2009/10/15      
  98 >A/CanadaSK/RV2926/2009/10/07      ............................................................... .....................................T.....G...T......C. ...................................................... ........................A............................G...T.. ..A....................A...A.....T .........A..A.......G.G........... .............. .......................       20     15 ,     15     15      98:>A/CanadaSK/RV2926/2009/10/07      
  99 >A/CanadaON/RV2964/2009/10/14      ............................................................... .....................................T.....G...T......C. ...................................................... ........................A............................G...T.. ..A....................A...A.....T .........A..A.......G.G........... .............. .......................       21     15 ,     16     15      99:>A/CanadaON/RV2964/2009/10/14      
 100 >A/CanadaNFL/RV3019/2009/10/25     ............................................................... .....................................T.....G...T......C. ...................................................... ........................A............................G...T.. ..A....................A...A.....T ............A.......G.G........... .............. .......................       21     14 ,     16     14     100:>A/CanadaNFL/RV3019/2009/10/25     
 101 >A/******/index/2009/02/01         ............................................................... ........................................................ ...................................................... ............................................................ .................................. .................................. .............. .......................        0      0 ,      0      0     101:>A/******/index/2009/02/01         
 102 >A/WI/629-D00908,2009/11/22        ..................................G............G...G.........A. ..........................G................G...T......C. .............................C........................ ...............G........A......A.........................T.. ..A......TC............A...A.....T ............A....G..G......A...... ......C.A.A... .......G.......A...A...       31     29 ,     31     29     102:>A/WI/629-D00908,2009/11/22        
 103 >A/WI/629-D00888,2009/11/02        ..................................G............G...G.........A. ..........................G................G...T......C. .............................C........................ ...............G........A......A.........................T.. ..A......TC............A...A.....T ............A....G..G......A...... ......C.A.A... .......G.......A...A...       29     29 ,     29     29     103:>A/WI/629-D00888,2009/11/02        
 104 >A/WI/629-D02317,2009/11/05        ...............................................G...G.........A. ..........................G................G...T......C. .............................C........................ ...............G........A......A.........................T.. ..A......TC............A...A.....T ............A....G..G......A...... ......C.A.A... .......G.......A...A...       32     28 ,     32     28     104:>A/WI/629-D02317,2009/11/05        
 105 >A/WI/629-D01190,2009/11/24        ...............................................G...G.........A. ..........................G................G...T......C. .............................C........................ .........A.....G........A......A.........................T.. ..A......TC............A...A.....T ............A....G..G......A...... ......C.A.A... .......G.......A...A...       34     29 ,     34     29     105:>A/WI/629-D01190,2009/11/24        
 106 >A/WI/629-D02073,2009/12/16        ...............................................G...G.........A. ..........................G................G...T......C. ............................AC........................ ...............G........A......A.........................T.. ..A......TC............A...A.....T ............A....G..G......A...... ......C.A.A... .......G.......A...A...       35     29 ,     35     29     106:>A/WI/629-D02073,2009/12/16        
 107 >A/Texas/JMS366,2009/11/08         ...............................................G...G....G....A. ...........................................GC..T......C. .............................C........................ ........................A................................T.. ..A............G.......A...A.....T ............A.......G....A........ ........A.A... .......G...........A...       32     23 ,     32     23     107:>A/Texas/JMS366,2009/11/08         
 108 >A/Texas/46182018,2009/10/18       ...............................................G...G....G....A. ...........................................GCG.T......C. .............................C........................ ........................A..................A.............T.. ..A............GA......A...A.....T ............A......AG....A........ ........A.A... .......G...........A...       29     27 ,     29     27     108:>A/Texas/46182018,2009/10/18       
 109 >A/Texas/JMS392,2009/12/25         ...............................................G...G....G....A. .................................T.........GCG.T......C. .............................C........................ ........................A..................A.............T.. ..A............GA......A...A.....T ............AT.....AG....A........ ........A.A... .......G...........A...       34     29 ,     34     29     109:>A/Texas/JMS392,2009/12/25         
 110 >A/NY/5620,2009/11/02              ................G..............................G...G..G......A. C.....A...A...A.................A..........G...T.....AC. ...............T...................................... ............T.......A...A..................A.............T.. ..A...................TA...A.....T ............A.......G............. ........A.A... .G.....G...........AT..       39     33 ,     39     33     110:>A/NY/5620,2009/11/02              
 111 >A/NY/5173,2009/10/17              ................G..............................G...G..G......A. C.....A...A...A.................A..........G...T.....AC. .............................C.....T.T................ ............T...........A..................A.............T.. ..A...................TA...A.....T ............A.......G............. ........A.A... .G.....G...........AT..       35     34 ,     35     34     111:>A/NY/5173,2009/10/17              
 112 >A/Madrid/INS222,2009/11/03        ................G..............................G...G.........A. C.....A...A...A............................G...T.....AC. .............................C.....T.T................ ............T...........A..................A.............T.. ..A...................TA...A.....T ............A.......G............. ........A.A... .G.....G...........AT..       35     32 ,     35     32     112:>A/Madrid/INS222,2009/11/03        
 113 >A/San Diego/INS214,2009/11/09     ...............................................G...GG........A. ........C......C......................C....G...T......C. ..................G..........C........................ .......................CA................................T.. ..A....................A...A.....T ............A.......G............. ........A.A... .......G.........G.A...       31     26 ,     31     26     113:>A/San Diego/INS214,2009/11/09     
 114 >A/Pensacola/INS212,2009/11/10     ...............................................G...G.......T.A. .....................A.....................G...T......C. .............................C........................ ........................A...................G............T.. ..A....................A...A.....T ............A.......G............. ........A.AG.. ......TG...........A...       33     24 ,     33     24     114:>A/Pensacola/INS212,2009/11/10     
 115 >A/Athens/INS392,2010/01/06        ...............................................G...G......CT.A. .....................A...C.................G...T......C. .............................C........................ .......G................A...................G.........G..T.. ..A......A.........A...A...A.....T ............A.....A.G............. .......TA.AG.. .......G...........A...       35     31 ,     35     31     115:>A/Athens/INS392,2010/01/06        
 116 >A/WI/629-D02082,2009/10/19        ...............................................G...G......CT.A. .....................A.....................G...T......C. .........T...................C........................ ........................A...................G............T.. ..A....................A...A.....T ............A.......G............. ........A.AG.. .......G...........A...       31     25 ,     31     25     116:>A/WI/629-D02082,2009/10/19        
 117 >A/San Diego/INS105,2009/11/04     ............................................................... ...........................................G...T......C. .........T............................................ .........................................................T.. ..A.........T..........A...A.....T ............A.......G............. ........A.A... .......G...........A...       37     16 ,     37     16     117:>A/San Diego/INS105,2009/11/04     
 118 >A/Texas/JMS360,2009/11/07         .............T...T...............C..............T............A. .......................................G...G...T........ ...........G.......................................... ...A....................A............Y................R..T.. .AA....................A...A...... ............A.......G............. ........ACA... .......G........A..A..G       38     27 ,     38     27     118:>A/Texas/JMS360,2009/11/07         
 119 >A/Texas/JMS359,2009/11/07         .............T...T...............C..............T............A. ...................................C...G...G...T......C. ........................A....C........................ ........................A............T...................T.. .AA....................A...A...... ............A.......G............. ........ACA... .......G........A..A..G       31     28 ,     31     28     119:>A/Texas/JMS359,2009/11/07         
 120 >A/Texas/JMS404,2010/01/08         ...............................................G.............A. ...................................C...G...G...T......C. .............................C.........T.............. ........................A................................T.. ..A....................A..AA...... ............A.......G............. ....A...A.A... .......G...........A...       34     22 ,     34     22     120:>A/Texas/JMS404,2010/01/08         
 121 >A/NY/6663,2009/11/23              ...............................................G.............A. ...C....C...................C..............G...T......C. .............................C........................ ...A....................A.....C..........................T.. ..A........A.C.........A...A...... ...C........A.......G............. ....A...A.A... .......G...........A...       37     26 ,     37     26     121:>A/NY/6663,2009/11/23              
 122 >A/NY/7480,2010/03/01              ..............................A................G...G.........A. .........G..............G....A.............G...T......C. ...............A.............C........................ ........................A.....................C..........T.. ..A..T.................A...A....T. ............A.......G............. ........A.A... .....A.GA..G.......A...       44     29 ,     44     29     122:>A/NY/7480,2010/03/01              
 123 >A/NY/6937,2009/12/11              ..............................A................G...G.....A.T.A. ........................G....A.............G...T......C. ...............A.............C........................ ........................A.....................C..........T.. ..A...........C........A.C.A.....T ............A.......G............G ........A.A... .....A.GA..G.......A...       40     32 ,     40     32     123:>A/NY/6937,2009/12/11              
 124 >A/NY/5196,2009/10/20              ..............................A................G...G.........A. ........................G....A.............G...T......C. ...............A.............C........................ ........................A.....................C..........T.. ..A...........C........A.C.A.....T ............A.......G............. ........A.A... .....A.GA..G.......A...       29     29 ,     29     29     124:>A/NY/5196,2009/10/20              
 125 >A/Chicago/WRAIR1691P,2009/10/14   ...G.CA..............................A.........G...G........... ...........................................G...T........ .............................C........................ ........................A................................T.. ..A....................A.C.A.....T ............A.......G............. ........A.A... .......GA..G.......A...       32     24 ,     32     24     125:>A/Chicago/WRAIR1691P,2009/10/14   
 126 >A/Boston/658,2009/11/13           .....................................A.........G...G.........A. ...........................................G...T......CA .............................C........C............... ........................A................................T.. ..A....................A.C.A.....T ............A.......G............. ........A.A... ......TGA..G.......A...       36     26 ,     36     26     126:>A/Boston/658,2009/11/13           
 127 >A/Aarhus/INS237,2009/11/23        ..........A..........................A.........G...G.........A. ....................................A......G...T......C. .............................C........................ ........................A...............................AT.. ..A....................A.C.A.....T ............A.......G............. ........A.A... ..G....GA..G.......A...       38     27 ,     38     27     127:>A/Aarhus/INS237,2009/11/23        
 128 >A/Texas/JMS371,2009/11/14         ...........G...................................G...G.......T.A. ..A........................................G...T......C. .............................C........................ ........................A........TT..........T...........T.. ..A....................A.C.A.....T ............A.......G............. ........A.A... ....A..GA..........A...       32     28 ,     32     28     128:>A/Texas/JMS371,2009/11/14         
 129 >A/Athens/INS125,2009/12/13        ...........G...................................G...G.........A. ..A.................A......................G...T......C. .............................C........................ ........................A.........T..........T...........T.. ..A....................A.C.A.....T ....A.......A.......G............. .......TA.A... ....A..GA..........A...       33     29 ,     33     29     129:>A/Athens/INS125,2009/12/13        
 130 >A/Athens/INS275,2009/12/15        ...........G...................................G...G.........A. ..A.................A......................G...T......CA .............................C........................ ........................A.........T..........T...........T.. ..A....................A.C.A.....T ....A.......A.......G.........G... ........A.A... ....A..GA..........A...       32     30 ,     32     30     130:>A/Athens/INS275,2009/12/15        
 131 >A/Athens/INS261,2009/12/13        ...........G...................................G...G.........AA ..A.................A......................G...T......C. .............................C........................ ........................A.........T..........T...........T.. ..A....................A.C.A.....T ....A.......A.......G.........G... ........A.A... ....A..GA..........A...       33     30 ,     33     30     131:>A/Athens/INS261,2009/12/13        
 132 >A/WI/629-D02489,2009/11/18        ...........G...................................G...G.........A. ..A........................................G...T......C. .............................C........................ ...A....................A.........T..........T...........T.. ..A....................A.C.A.....T ............A.......G............. ........A.A... ....A..GA..........A...       32     27 ,     32     27     132:>A/WI/629-D02489,2009/11/18        
 133 >A/WI/629-D00636,2009/12/10        .......................A.....................................A. ..A............................A...........G...T......C. ...................................................... ...A............A.......A.........T..........T...........T.. ..A....................A...A...... T...........A.......G............. ........A.A... .......G...............       33     22 ,     33     22     133:>A/WI/629-D00636,2009/12/10        
 134 >A/Aarhus/INS238,2009/11/24        .......................A.....................................A. ....................................A......G...Y......Y. ...A.................................................. ...................C..T.A...........G....................T.. ..A....................A...A...... T...........A.......G............. .....A..A.A... .......G...............       30     22 ,     30     22     134:>A/Aarhus/INS238,2009/11/24        
 135 >A/Ankara/WRAIR1428T,2009/10/21    .....C......................................G................A. ....CG...........T.........................G...T.A...... ....................................C................. ........................AA.............G....G............T.. ..A....................A...A...... ............A.......G............. ........A.A... .......G...............       43     23 ,     43     23     135:>A/Ankara/WRAIR1428T,2009/10/21    
                                                                                                                                                                                                                                                                                                                                                                                                  
---Index--------------------------------TGTAGGGCAGGACAAAACGTCTTGGAGGAGGGGTACGGAGGCGGATCACGAAATATAGTCAGG ACGTTAGATAGGGGGTGCTAGTAAATACAGTGCGATGCTATATTTAACCCGCGGTC AGGGCGAGCCGAACCGTCAGTCCCGGCGGTGTGGGCTCAGACCAATTTAGCGCA AGCCGTTACCCTCGAAGAGTGTGTTGCAGATCGCCTACCACGAGACTCAGTAGAAACCCG ACGGTCTCTCTGCTTAGCCGACCGCAGGGGGCCC CTATGATGTGCAGCCTGAGGAGACAGTCGAACAA TTTCGGTCGTGACT TAATCGCACATAGCCGGAGGCTA 
-codon-position-------------------------     2    2 2  2  12            1     1 21     1  2 1   2 1 2   1          1     1     2   1      11    1  2 122       1 11               1     1   11 22     11 1     212   11  1 12  221211  1 12 2 12122  21221  1      12  2 12 1  2 1     11             12 22      2  1   2 1 2 212 211    1 1111  22      1  2 1   1   1 1    12211 1  1111 211 11 
                                        000000000000000000000000000000000000001111111111111111111222222 00000000000000000000001111111111111111111111111112222222 000000000000000000000011111111111111111111111111122222 000000000000000000000000000000000000000011111111111111111111 0000000000000000000011111111111111 0000000000000000000000001111111111 00000000000000 00000000000000000000000 
                                        000001111111112233444444455555555567880011112223445666789001111 00122233334566788888990000011122224455566777789990111222 000122344446677788888900001123334455666777888999900111 011112222222333444555666666677788888899900111122222222233444 0223333445677888899911111112223334 0111222222223345666778990011122333 00003344456667 01112333344456666677778 
                                        678991133466771469335568801123488956781702371568117778197581368 35526656895747103458585557912511560103624026700597289045 348467928991846812688602691590120405278349236444457044 403461455569569033346044569911313668914918577812222337888057 3490377263509445945701345664895573 2003334444581910145245255967937224 00010333910596 73892246614833445902341 
                                        351690458412679590340950676921623478958730738131097456399595231 41624746496128777452743897572828465460308120911556443217 704713630282112933758924880945921307681714406468950336 565576347968209956690907855649986278885940512226789018123853 6981325654452395433598435478936744 6232012789736644561129540769408398 68906956200560 55997307957624391834884

**mixin** · May 11, 2011, 12:49 PM

Re: Sequences at Genbank!

Thanks for posting that.

Do we have a list somewhere of the possible causes of sequencing errors?

I know samples can get contaminated, etc. There must be other things?

**gsgs** · May 21, 2011, 02:10 PM

Re: Sequences at Genbank!

26 full genomes from this season at genbank
22 of them are the India/UK strain

I count
25=7+3+5+4+1+2+1+2 markers for the India/UK strain

with 2 substrains
1.) Beijing,Czech,Denmark,Ontario with
earliest THA/09/10
2.) Thailand,Ontario,Sibiria with additional 20=2+4+6+3+3+1+0+1 markers
(earliest THA/2010/09/07

1.)
C666T,T957C,G1030A,A1060T,G1149A,A1446G,G2091A
C1186T,C1896A,C2190T
C99T,G663A,T873C,C963A,G1986A
G605C,T1056C,G1171A,C1403T
A1329G
C1107A,G1131A
G238A
C264T,T414C

plus the 11 Cancun markers

2.)
C1044T,G1665A
A366G,A630G,C999T,A1191G,T1304C,A1905G
C336T,A507G,G1027A,C1428T,T1776C,T2115C
C144T,G640A,C1437T,C1656T
C930T,C963T,G987A,T1059C
A131G
.
C268A

plus the 36 from 1.)

60 mutations --> created in mid 2010

_________________
no patents on genes, publish the GISAID sequences !

Code:

                                      00000000000001111111111111111111122 00000000000001111111111111111122222 0000000000000000000000011111111111111122 0000000000000000001111111111 000000000111111 00000000011111111 00000000 0000000000 
                                      11244667777890000112223455667889901 01134666699990011223333346899911112 0012233445566677778889900134456778999911 0013344455556667990113444456 223459999011223 01337778911112223 23466788 1222333477 
                                      14726361169953466476686436369052696 31361033513992989010037926905704895 8950923560068903781276822442345171078801 4743457935790452045378003665 797613468546492 53182242300384690 33906222 6166346134 
                                      74982361735670402936927613957640813 01561302226393861653454858655733407 8934676224737155599233879938789362870665 7242018215985089056116387436 688890237931839 61600123817108602 89203757 3748907495 
-codon-position-----------------------   2     1 2 1 1     12 1 1                21      1   12       2  1  1 1   2  2     1  1     11  2              2  2111    1211     1 21      1              2212 1112   1     1    1 2 11 1 11 11 
---Index------------------------------AGTGCGCGCGCGTGCAAGGTGCAAGGGGGATGCGG AAAAAGAGCGTGCCACAATATCACCACACCTGCCC ACCGGGCCGGAGTGAGCGGTTCAGACCCCTGCTGGGTGTT ATCAGGATGTATGGTAGCTAGAGCCCGC AGCCCCCCGTGCGGA TAGTTGACAACGGTCAC GGGGTCTT GTCCCCATGG 
   1 >A/******/index/2009/02/01       ................................... ................................... ........................................ ............................ ............... ................. ........ .......... 
   2 >A/THA/CU-H2417/2010/09/13       ..................................A ................................... ....A................................... ..............A.....A..T.... .A........A.A.. ..A...G.......... ..AA.... ......G... 
   3 >A/Cancun-NY/Index/2009/04/15    ..................................A ................................... ........................................ ..............A........T.... .A........A.A.. ..A...G.......... ..AA.... ......G... 
   4 >A/Ontario/3620/2010/11/24       G....A.A.A.A......A.....AAA..G..T.A G...GA.AT..A.....G.G..G.T...T.AAT.T G....A...........AAC.....TA.A..T.A.AC.C. G....A.CAC.C..AGT..G...T.TA. .A..T.T...A.A.. ..A...G.GG..A.TGT .AAA.A.. CA..T.G... 
   5 >A/Ontario/741328/2010/11/23     G....A.A.A.A......A.....AAA..G..T.A ---.GA.AT..A.....G.G..G.T...T.AAT.T G....A...........AAC.....TA.A..T.A.AC.C. G....A.CAC.C..AGT..G...T.TA. .A..T.T...A.A.. ..A...G.GG..A.TGT .AAA.A.. CA..T.G... 
   6 >A/Ontario/804635/2010/12/14     G....A...A........A.....A.A..G..T.A G...G..A...A.......G....T...T...T.. G..........T......A.......A.A......AC.C. .....A..A..C..A....G...T.T.. .A....T...A.A.. ..A...G.G...A..G. .AAA.... CA....G... 
   7 >A/THA/CU-H2176/2010/08/17       ......T.....CATTGA.....G...A.....AA ...G..G..A.........G.............T. .T....T...GA.........A.A...T....C....A.C ..............A...C...ATT..T .A...T.TACA.A.G .GA.CAG.......... A.AA.... ..TA..GC.. 
   8 >A/THA/CU-B4148/2010/10/09       ......T.....CATT.A.....G...A.....AA ...G..G.....T..T..........AG.....T. .T....T...GA........CA.A...T..A.C....A.C ............CAA...C.A.ATT..T .A...T.TA.A.A.G .GA.CAG...AA..... A.AA.... ..TA..GC.. 
   9 >A/Moscow/IIV-33/2010/10/13      ......T.....CATT.A.....G...A..C..AA ...G..G.....T..TG.........AG.....T. .T....T...GA...A....CA.A...T....C....A.C ............CAA...C.A.ATT..T .A...T.TA.A.A.G .GA.CAG...AA..... A.AA.... ..TA..GC.. 
  10 >A/THA/CU-H2548/2010/09/27       ..C...T.....CATT.A.....G...A..C..AA ...G..G.....T..TG.........AG.....T. .T....T...GA...A....CA.A...T....C....A.C ............CAA...C.A.ATT..T .A...T.TA.A.A.G .GA.CAG...AA..... A.AA.... ..TA..GC.. 
  11 >A/Vladivistok/7/2010/12/03      ..C...T.....CATT.A.....G...A.....AA ...G..G.....T..TG...CT....AG.....T. .T....T.A.GA........CA.A...T....C....A.C ..T...G.....CAA...C.A.ATT..T .A...T.TACA.A.G .GA.CAG...AA..... A.AA.... ..TA..GC.. 
  12 >A/THA/CU-H2911/2011/01/20       ......T.....CATT.A.....G...A.....AA ...G..G.....T..TG...C.....AG.....T. .T....T.A.GA........CA.A...T....C....A.C ..T...G.....CAA...C.A.ATT..T .A...T.TACA.A.. .GA.CAG...AA..... A.AA.... ..TA..GC.. 
  13 >A/THA/CU-H2698/2010/11/03       ...A..T.....CATT.A.....G...A...A.AA ..GG..G.....T..TG...C....GAG.....T. .T....T.A.GA....T...CA.AC..T....C....A.C .CT...G.....CAA...C.A.ATT..T .A...T.TAC..A.G .GACCAG...AA..... A.AA.... ..TA..GCA. 
  14 >A/Ulaanbaatar/190/2011/01/11    ...A..T.....CATT.A.....G...A...A.AA ..GG..G.....T..TG...C....GAG.....T. .T....T.A.GA....T...CA.AC..T....C....A.C .CT...G.....CAA...C.A.ATT..T .A...T.TACA.A.G .GACCAG...AA..... A.AA.... ..TA..GCA. 
  15 >A/THA/CU-B4339/2010/11/04       ......T.....CATT.A.....G...A.....AA ...G..G....AT..TG...C.....AG.T..... .T....T.A.GA........CA.A...T....C.A..A.C ..T...G.....CAA...C.A.ATT..T .A...T.TACA.A.G .GA.CAG...AA..... A.AA.... ..TA.AGC.. 
  16 >A/Ontario/720545/2010/11/17     ......T.....CAT..A.....G...A.....AA ...G..G.....T..TG...C.....AG.....T. .T....T..AGA........CA.A...T....C....A.C ..T.........CAA...C.A.ATT..T .A...T.TACA.A.G .GA.CAG...AA..... A.AA.... ..TA..GC.. 
  17 >A/THA/CU-C1157/2010/09/07       ......T.....CATT.A.....G...A.....AA ...G..G........TG...C.....AG.....T. .T....T...GA........CA.A...T..A.C....A.C ..T.........CAA...C.A.ATT..T .A...T.TACA.A.G .GA.CAG...AA..... A.AA..C. ..TA..GC.. 
  18 >A/THA/CU-H2543/2010/09/25       ......T.....CATT.A.....G...A.....AA ......G..A..........C.....AG.....T. .T....T...GA........CA.A...T....C....A.C ..T.........CAA...C.A.ATT..T .A...T.TAC.AA.. .GA...G.......... ..AAC.CC ..TG..G... 
  19 >A/THA/CU-H2358/2010/09/08       ......T.T...CATT....A..G...A.....AA .........A.........G.............T. ....A......A........C......T.........A.C ..T.........CAA...C.A.ATT..T .A...T.TAC.AA.. .GA.CAGT..AA..... ..AAC.CC ..TA..GC.. 
  20 >A/THA/CU-H2283/2010/08/31       .A....T.....CA.T.A..A............AA .............T.T..A.......A......T. .TT........A..G.....C................A.. ...T........CAA...C.A.AT.... .AT.......AAA.. ..A...GT..AA..... A.AA.... ..T...GC.A 
  21 >A/THA/CU-H2389/2010/09/10       .A....T.....CA.T.A.....G.........AA .............T.T..A.......A......T. .TT........A..G.....C................A.. ...T........C.A...C.A.AT.... .AT.......A.A.. ..A.CAGT..AA..... A.AA.... ..T...GC.A 
  22 >A/Beijing/HZ01/2011/01/14       ......T.T...CA.TGA.....G.........AA ......G........T..........A......T. .T....T....A..G.....CA...............A.. ............C.A...C.A.AT.... .A........A.A.G ..A.CAG...AAA.... A.AA.... ..T...GC.. 
  23 >A/Denmark/72/2011/02/07         ....A.T...TACA.T.A.C.TGG....A....AA .G........C...GT.......T..A......T- .T.A...Y...ACA......CAG......C.......A-- ....A.....G.C.A..TC.AGAT.... CA.A......A.AAG C.A.CAGT..AA.C... A.AA.... ..T...GC.. 
  24 >A/Denmark/71/2011/02/08         ....A.T...TACA.T.A.C.TGG....A....AA .G........C...GT.......T..A......T- .T.A...Y...ACA......CAG......C.......A-- ....A.....G.C.A..TC.AGAT.... CA.A......A.AAG C.A.CAGY..AA.C... A.AA.... ..T...GC.. 
  25 >A/Denmark/36/2011/02/01         ....A.T...TACA.T.A.C.TGG....A....AA .G........C...GT.......T..A......T- .T.A.......ACA......CAG......C.......A-- ....A.....G.C.A..TC.AGAT.... CA.A......A.AAG C.A.CAGY..AA.C... A.AA.... ..T...GC.. 
  26 >A/Denmark/73/2011/01/29         ....A.T...TACA.T.A.C.TGG....A....AA .G........C...GT.......T..A......T- .T.A.......ACA......CAG......C.......A-- ....A.....G.C.A..TC.AGAT.... CA.A......A.AAG C.A.CAG...AA.C... A.AA.... ..T...GC.. 
  27 >A/Czech Republic/1/2011/01/25   ......T...T.CA.T.A.....G.........AA ...............T..........A..T...T. .T.......A.A........CA...............A.. ....A.......C.A...C.A.AT.... .A........A.A.G ..A.CAG...AA.C... A.AA.... ..T..AGC.. 
  28 >A/Ontario/130741/2010/10/13     ......T.....CA.T.A.....G.........AA ...............T.....T....A......T. .T.........A........CA............A..A.. ............C.A...C.A.AT.... .A........A.A.G ..A...G...A...... A.AA.... ..T...GC.. 
                                                                                                                                                                                                                                          
---Index------------------------------AGTGCGCGCGCGTGCAAGGTGCAAGGGGGATGCGG AAAAAGAGCGTGCCACAATATCACCACACCTGCCC ACCGGGCCGGAGTGAGCGGTTCAGACCCCTGCTGGGTGTT ATCAGGATGTATGGTAGCTAGAGCCCGC AGCCCCCCGTGCGGA TAGTTGACAACGGTCAC GGGGTCTT GTCCCCATGG 
-codon-position-----------------------   2     1 2 1 1     12 1 1                21      1   12       2  1  1 1   2  2     1  1     11  2              2  2111    1211     1 21      1              2212 1112   1     1    1 2 11 1 11 11 
                                      00000000000001111111111111111111122 00000000000001111111111111111122222 0000000000000000000000011111111111111122 0000000000000000001111111111 000000000111111 00000000011111111 00000000 0000000000 
                                      11244667777890000112223455667889901 01134666699990011223333346899911112 0012233445566677778889900134456778999911 0013344455556667990113444456 223459999011223 01337778911112223 23466788 1222333477 
                                      14726361169953466476686436369052696 31361033513992989010037926905704895 8950923560068903781276822442345171078801 4743457935790452045378003665 797613468546492 53182242300384690 33906222 6166346134 
                                      74982361735670402936927613957640813 01561302226393861653454858655733407 8934676224737155599233879938789362870665 7242018215985089056116387436 688890237931839 61600123817108602 89203757 3748907495

seem that A/THA/CU-H2417/2010/09/13 is from 2009
rather than 2010

**gsgs** · May 24, 2011, 06:35 AM

Re: Sequences at Genbank!

2506 full ****** genomes from genbank

number of mutations over time

**gsgs** · June 6, 2011, 09:47 AM

Re: Sequences at Genbank!

Attached Files

**gsgs** · June 13, 2011, 02:21 AM

Re: Sequences at Genbank!

Singapore HA sorted by submission date

no Chi in SGP until Feb.2011

19 from the India/UK - strain , earliest 2010/10/20

the other 11 from this season (since summer 2010)
have markers T552C,A183G,G340A,G796T,A963C,A1118C,G1380A,T1467C ,

not in England

UK Genetic Evaluation thread - FluTrackers News and Information

http://www.flutrackers.com/forum/showpost.php?p=386228

Announcement

Sequences at Genbank!

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