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niman
PostPosted: Tue Dec 06, 2011 5:36 pm 
Online

Joined: Wed Aug 19, 2009 10:42 am
Posts: 28245
Location: Pittsburgh, PA USA
niman wrote:
PB1 matches

EPI344403 A/Indiana/08/2011 (A/H3N2) segment 2 (PB1) 4133.9 0.000000e+00 2260/2271 (99%)
EPI344395 A/Indiana/10/2011 (A/H3N2) segment 2 (PB1) 4133.9 0.000000e+00 2260/2271 (99%)
EPI344387 A/Indiana/10/2011 (A/H3N2) segment 2 (PB1) 4133.9 0.000000e+00 2260/2271 (99%)
EPI335627 A/Indiana/08/2011 (A/H3N2) segment 2 (PB1) 4133.9 0.000000e+00 2260/2271 (99%)
EPI333150 A/Indiana/08/2011 (A/H3N2) segment 2 (PB1) 4133.9 0.000000e+00 2260/2271 (99%)
EPI335608 A/Pennsylvania/09/2011 (A/H3N2) segment 2 (PB1) 4128.4 0.000000e+00 2259/2271 (99%)
EPI340982 A/Indiana/10/2011 (A/H3N2) segment 2 (PB1) 4126.5 0.000000e+00 2256/2267 (99%)
EPI342605 A/swine/NY/A01104005/2011 (A/H3N2) segment 2 (PB1) 4117.3 0.000000e+00 2257/2271 (99%)
EPI339169 A/Maine/06/2011 (A/H3N2) segment 2 (PB1) 4106.2 0.000000e+00 2255/2271 (99%)
EPI342702 A/Iowa/09/2011 (A/H3N2) segment 2 (PB1) 4089.6 0.000000e+00 2252/2271 (99%)
EPI342686 A/Iowa/07/2011 (A/H3N2) segment 2 (PB1) 4071.1 0.000000e+00 2242/2261 (99%)
EPI222634 A/swine/Kansas/77778/2007 (A/H1N1) segment 2 (PB1) 4067.4 0.000000e+00 2248/2271 (98%)
EPI291907 A/Ohio/02/2007 (A/H1N1) segment 2 (PB1) 4045.3 0.000000e+00 2244/2271 (98%)
EPI291859 A/Ohio/01/2007 (A/H1N1) segment 2 (PB1) 4045.3 0.000000e+00 2244/2271 (98%)
EPI291790 A/Illinois/09/2007 (A/H1N1) segment 2 (PB1) 4045.3 0.000000e+00 2244/2271 (98%)
EPI173658 A/swine/OH/511445/2007 (A/H1N1) segment 2 (PB1) 4045.3 0.000000e+00 2244/2271 (98%)
EPI153518 A/swine/Ohio/24366/07 (A/H1N1) segment 2 (PB1) 4045.3 0.000000e+00 2244/2271 (98%)
EPI342694 A/Iowa/08/2011 (A/H3N2) segment 2 (PB1) 4043.4 0.000000e+00 2227/2246 (99%)
EPI291824 A/Michigan/09/2007 (A/H1N2) segment 2 (PB1) 4023.1 0.000000e+00 2240/2271 (98%)
EPI177836 A/swine/Minnesota/1300/2007 (A/H3N2) segment 2 (PB1) 4023.1 0.000000e+00 2240/2271 (98%)
EPI166282 A/swine/Illinois/SG-00244/2007 (A/H1N1) segment 2 (PB1) 4017.6 0.000000e+00 2231/2259 (98%)
EPI337463 A/swine//Ohio/02026/2008 (A/H1N1) segment 2 (PB1) 4012.0 0.000000e+00 2238/2271 (98%)
EPI295333 A/swine/South Dakota/152B/2009 (A/H1N2) segment 2 (PB1) 4006.5 0.000000e+00 2237/2271 (98%)
EPI281291 A/swine/Missouri/02060/2008 (A/H1N1) segment 2 (PB1) 4006.5 0.000000e+00 2237/2271 (98%)
EPI337415 A/swine/Minnesota/01862/2007 (A/H3N2) segment 2 (PB1) 3989.9 0.000000e+00 2234/2271 (98%)
EPI281290 A/swine/North Carolina/02023/2008 (A/H1N1) segment 2 (PB1) 3984.3 0.000000e+00 2233/2271 (98%)
EPI337591 A/swine/Illinois/01918/2007 (A/H1N1) segment 2 (PB1) 3973.3 0.000000e+00 2231/2271 (98%)
EPI101401 A/turkey/Ohio/313053/04 (A/H3N2) segment 2 (PB1) 3973.3 0.000000e+00 2232/2272 (98%)
EPI337599 A/swine/Illinois/01917/2007 (A/H1N1) segment 2 (PB1) 3967.7 0.000000e+00 2230/2271 (98%)
EPI337567 A/swine/Illinois/01981/2008 (A/H1N1) segment 2 (PB1) 3967.7 0.000000e+00 2230/2271 (98%)
EPI291840 A/Minnesota/09/2010 (A/H3N2) segment 2 (PB1) 3967.7 0.000000e+00 2230/2271 (98%)
EPI229378 A/turkey/OH/313053/2004 (A/H3N2) segment 2 (PB1) 3967.7 0.000000e+00 2231/2272 (98%)
EPI188112 A/swine/Illinois/Sg-00443/2008 (A/H1N1) segment 2 (PB1) 3967.7 0.000000e+00 2230/2271 (98%)
EPI293963 A/Minnesota/11/2010 (A/H3N2) segment 2 (PB1) 3958.5 0.000000e+00 2227/2271 (98%)
EPI244299 A/Kansas/13/2009 (A/H3N2) segment 2 (PB1) 3956.6 0.000000e+00 2228/2271 (98%)
EPI184446 A/swine/North Carolina/R08-001877-D08-013371/2008 (A/H3N2) segment 2 (PB1) 3956.6 0.000000e+00 2228/2271 (98%)
EPI312979 A/Pennsylvania/40/2010 (A/H3N2) segment 2 (PB1) 3951.1 0.000000e+00 2227/2271 (98%)
EPI291895 A/Wisconsin/12/2010 (A/H3N2) segment 2 (PB1) 3951.1 0.000000e+00 2227/2271 (98%)
EPI291867 A/Pennsylvania/14/2010 (A/H3N2) segment 2 (PB1) 3951.1 0.000000e+00 2227/2271 (98%)
EPI337957 A/swine/Illinois/02450/2008 (A/H0) segment 2 (PB1) 3945.6 0.000000e+00 2228/2273 (98%)
EPI337559 A/swine/Illinois/02251/2008 (A/H1N1) segment 2 (PB1) 3945.6 0.000000e+00 2227/2272 (98%)
EPI337391 A/swine/Nebraska/00722/2005 (A/H0) segment 2 (PB1) 3945.6 0.000000e+00 2227/2272 (98%)
EPI337347 A/swine/Iowa/01700/2007 (A/H3N2) segment 2 (PB1) 3945.6 0.000000e+00 2227/2272 (98%)
EPI103185 A/swine/Ontario/33853/2005 (A/H3N2) segment 2 (PB1) 3945.6 0.000000e+00 2228/2273 (98%)
EPI103113 A/Ontario/RV1273/2005 (A/H3N2) segment 2 (PB1) 3945.6 0.000000e+00 2228/2273 (98%)
EPI228920 A/turkey/Illinois/2004 (A/H3N2) segment 2 (PB1) 3940.0 0.000000e+00 2226/2272 (97%)
EPI227580 A/turkey/NC/353568/2005 (A/H3N2) segment 2 (PB1) 3940.0 0.000000e+00 2226/2272 (97%)
EPI158874 A/turkey/MN/366767/2005 (A/H3N2) segment 2 (PB1) 3940.0 0.000000e+00 2226/2272 (97%)
EPI103131 A/swine/Alberta/14722/2005 (A/H3N2) segment 2 (PB1) 3940.0 0.000000e+00 2227/2273 (97%)
EPI98708 A/swine/MI/PU243/04 (A/H3N1) segment 2 (PB1) 3940.0 0.000000e+00 2226/2272 (97%)
EPI337447 A/swine/Minnesota/00611/2005 (A/H3N2) segment 2 (PB1) 3934.5 0.000000e+00 2226/2273 (97%)
EPI335030 A/swine/North Carolina/38448-1/2005 (A/H1N1) segment 2 (PB1) 3932.6 0.000000e+00 2224/2271 (97%)
EPI182822 A/swine/Quebec/4001/2005 (A/H3N2) segment 2 (PB1) 3930.8 0.000000e+00 2225/2273 (97%)
EPI314337 A/turkey/BC/1529-3/2005 (A/H3N2) segment 2 (PB1) 3928.9 0.000000e+00 2225/2273 (97%)
EPI302680 A/swine/Pennsylvania/62170-3/2010 (A/H3N2) segment 2 (PB1) 3928.9 0.000000e+00 2223/2271 (97%)
EPI337607 A/swine/Illinois/02510/2009 (A/H1N1) segment 2 (PB1) 3923.4 0.000000e+00 2223/2272 (97%)
EPI337583 A/swine/Illinois/02385/2008 (A/H1N1) segment 2 (PB1) 3923.4 0.000000e+00 2223/2272 (97%)
EPI337575 A/swine/Illinois/02695/2009 (A/H1N1) segment 2 (PB1) 3923.4 0.000000e+00 2223/2272 (97%)
EPI337368 A/swine/Minnesota/00709/2005 (A/H3N2) segment 2 (PB1) 3923.4 0.000000e+00 2224/2273 (97%)
EPI103167 A/swine/Manitoba/12707/2005 (A/H3N2) segment 2 (PB1) 3923.4 0.000000e+00 2224/2273 (97%)
EPI188120 A/swine/Illinois/Sg-00445/2008 (A/H1N1) segment 2 (PB1) 3921.6 0.000000e+00 2206/2248 (98%)
EPI302668 A/swine/Pennsylvania/62170-1/2010 (A/H3N2) segment 2 (PB1) 3917.9 0.000000e+00 2221/2271 (97%)
EPI337503 A/swine/Minnesota/SG1144/2006 (A/H1N1) segment 2 (PB1) 3910.5 0.000000e+00 2221/2272 (97%)
EPI281295 A/swine/Ohio/02026/2008 (A/H1N1) segment 2 (PB1) 3910.5 0.000000e+00 2223/2274 (97%)
EPI153520 A/swine/Ohio/C62006/06 (A/H1N1) segment 2 (PB1) 3908.6 0.000000e+00 2218/2269 (97%)
EPI289639 A/swine/Minnesota/5947/2007 (A/H3N2) segment 2 (PB1) 3906.8 0.000000e+00 2221/2273 (97%)
EPI177834 A/swine/Minnesota/578/2007 (A/H3N2) segment 2 (PB1) 3903.1 0.000000e+00 2220/2273 (97%)
EPI166251 A/swine/Minnesota/SG-00234/2005 (A/H3N2) segment 2 (PB1) 3903.1 0.000000e+00 2213/2262 (97%)
EPI177832 A/swine/Minnesota/66853/2006 (A/H3N2) segment 2 (PB1) 3901.2 0.000000e+00 2221/2274 (97%)
EPI222680 A/swine/Oklahoma/011506/2007 (A/H3N2) segment 2 (PB1) 3895.7 0.000000e+00 2218/2272 (97%)
EPI103149 A/swine/British Columbia/28103/2005 (A/H3N2) segment 2 (PB1) 3895.7 0.000000e+00 2219/2273 (97%)
EPI337535 A/swine/Minnesota/001332/2006 (A/H3N2) segment 2 (PB1) 3893.9 0.000000e+00 2219/2273 (97%)
EPI337471 A/swine/Minnesota/01358/2006 (A/H1N1) segment 2 (PB1) 3890.2 0.000000e+00 2218/2273 (97%)
EPI177842 A/swine/Minnesota/2411/2007 (A/H1N2) segment 2 (PB1) 3890.2 0.000000e+00 2219/2274 (97%)
EPI103203 A/turkey/Ontario/31232/2005 (A/H3N2) segment 2 (PB1) 3890.2 0.000000e+00 2218/2273 (97%)
EPI98724 A/swine/IN/PU542/04 (A/H3N1) segment 2 (PB1) 3890.2 0.000000e+00 2217/2272 (97%)
EPI337551 A/swine/Minnesota/00484/2005 (A/H3N2) segment 2 (PB1) 3884.6 0.000000e+00 2217/2273 (97%)
EPI337527 A/swine/Minnesota/001581/2007 (A/H1N1) segment 2 (PB1) 3879.1 0.000000e+00 2215/2272 (97%)
EPI289640 A/swine/Minnesota/65767/2006 (A/H3N2) segment 2 (PB1) 3879.1 0.000000e+00 2215/2272 (97%)
EPI281288 A/swine/Nebraska/02013/2008 (A/H1N1) segment 2 (PB1) 3879.1 0.000000e+00 2217/2274 (97%)
EPI222650 A/swine/Minnesota/1145/2007 (A/H3N2) segment 2 (PB1) 3879.1 0.000000e+00 2216/2273 (97%)
EPI337519 A/swine/Minnesota/001444/2007 (A/H3N2) segment 2 (PB1) 3873.5 0.000000e+00 2214/2272 (97%)
EPI177841 A/swine/Minnesota/1900/2007 (A/H1N2) segment 2 (PB1) 3873.5 0.000000e+00 2216/2274 (97%)
EPI177838 A/swine/Minnesota/7931/2007 (A/H3N2) segment 2 (PB1) 3873.5 0.000000e+00 2215/2273 (97%)
EPI337381 A/swine/Minnesota/001200/2006 (A/H1N1) segment 2 (PB1) 3868.0 0.000000e+00 2214/2273 (97%)
EPI291901 A/Wisconsin/87/2005 (A/H1N1) segment 2 (PB1) 3868.0 0.000000e+00 2213/2272 (97%)
EPI185086 A/swine/Minnesota/SG-00239/2007 (A/H1N2) segment 2 (PB1) 3868.0 0.000000e+00 2216/2275 (97%)
EPI177844 A/swine/Minnesota/3239/2007 (A/H1N2) segment 2 (PB1) 3868.0 0.000000e+00 2215/2274 (97%)
EPI182829 A/mink/Nova Scotia/1055488/2007 (A/H3N2) segment 2 (PB1) 3862.5 0.000000e+00 2214/2274 (97%)
EPI179352 A/swine/IL/07003243/2007 (A/H1N2) segment 2 (PB1) 3862.5 0.000000e+00 2214/2274 (97%)
EPI177843 A/swine/Minnesota/2728/2007 (A/H1N2) segment 2 (PB1) 3862.5 0.000000e+00 2212/2272 (97%)
EPI177840 A/swine/Minnesota/66743/2006 (A/H1N2) segment 2 (PB1) 3862.5 0.000000e+00 2212/2272 (97%)
EPI166260 A/swine/Minnesota/SG-00237/2007 (A/H3N2) segment 2 (PB1) 3860.6 0.000000e+00 2203/2259 (97%)
EPI337423 A/swine/Minnesota/02053/2008 (A/H1N1) segment 2 (PB1) 3856.9 0.000000e+00 2212/2273 (97%)
EPI281292 A/swine/Minnesota/02011/2008 (A/H1N2) segment 2 (PB1) 3856.9 0.000000e+00 2213/2274 (97%)
EPI222672 A/swine/Oklahoma/008722/2007 (A/H3N2) segment 2 (PB1) 3856.9 0.000000e+00 2213/2274 (97%)
EPI177849 A/swine/Minnesota/69353/2006 (A/H1N1) segment 2 (PB1) 3856.9 0.000000e+00 2212/2273 (97%)
EPI177837 A/swine/Minnesota/7209/2007 (A/H3N2) segment 2 (PB1) 3856.9 0.000000e+00 2211/2272 (97%)
EPI291887 A/Texas/14/2008 (A/H1N1) segment 2 (PB1) 3855.1 0.000000e+00 2213/2274 (97%)
EPI166270 A/swine/Minnesota/SG-00240/2007 (A/H1N1) segment 2 (PB1) 3855.1 0.000000e+00 2202/2259 (97%)

This is the other parent for H3N2pdm11 (contributed PB1, N2, M gene).

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niman
PostPosted: Tue Dec 06, 2011 6:16 pm 
Online

Joined: Wed Aug 19, 2009 10:42 am
Posts: 28245
Location: Pittsburgh, PA USA
niman wrote:
niman wrote:
PB1 matches

EPI344403 A/Indiana/08/2011 (A/H3N2) segment 2 (PB1) 4133.9 0.000000e+00 2260/2271 (99%)
EPI344395 A/Indiana/10/2011 (A/H3N2) segment 2 (PB1) 4133.9 0.000000e+00 2260/2271 (99%)
EPI344387 A/Indiana/10/2011 (A/H3N2) segment 2 (PB1) 4133.9 0.000000e+00 2260/2271 (99%)
EPI335627 A/Indiana/08/2011 (A/H3N2) segment 2 (PB1) 4133.9 0.000000e+00 2260/2271 (99%)
EPI333150 A/Indiana/08/2011 (A/H3N2) segment 2 (PB1) 4133.9 0.000000e+00 2260/2271 (99%)
EPI335608 A/Pennsylvania/09/2011 (A/H3N2) segment 2 (PB1) 4128.4 0.000000e+00 2259/2271 (99%)
EPI340982 A/Indiana/10/2011 (A/H3N2) segment 2 (PB1) 4126.5 0.000000e+00 2256/2267 (99%)
EPI342605 A/swine/NY/A01104005/2011 (A/H3N2) segment 2 (PB1) 4117.3 0.000000e+00 2257/2271 (99%)
EPI339169 A/Maine/06/2011 (A/H3N2) segment 2 (PB1) 4106.2 0.000000e+00 2255/2271 (99%)
EPI342702 A/Iowa/09/2011 (A/H3N2) segment 2 (PB1) 4089.6 0.000000e+00 2252/2271 (99%)
EPI342686 A/Iowa/07/2011 (A/H3N2) segment 2 (PB1) 4071.1 0.000000e+00 2242/2261 (99%)
EPI222634 A/swine/Kansas/77778/2007 (A/H1N1) segment 2 (PB1) 4067.4 0.000000e+00 2248/2271 (98%)
EPI291907 A/Ohio/02/2007 (A/H1N1) segment 2 (PB1) 4045.3 0.000000e+00 2244/2271 (98%)
EPI291859 A/Ohio/01/2007 (A/H1N1) segment 2 (PB1) 4045.3 0.000000e+00 2244/2271 (98%)
EPI291790 A/Illinois/09/2007 (A/H1N1) segment 2 (PB1) 4045.3 0.000000e+00 2244/2271 (98%)
EPI173658 A/swine/OH/511445/2007 (A/H1N1) segment 2 (PB1) 4045.3 0.000000e+00 2244/2271 (98%)
EPI153518 A/swine/Ohio/24366/07 (A/H1N1) segment 2 (PB1) 4045.3 0.000000e+00 2244/2271 (98%)
EPI342694 A/Iowa/08/2011 (A/H3N2) segment 2 (PB1) 4043.4 0.000000e+00 2227/2246 (99%)
EPI291824 A/Michigan/09/2007 (A/H1N2) segment 2 (PB1) 4023.1 0.000000e+00 2240/2271 (98%)
EPI177836 A/swine/Minnesota/1300/2007 (A/H3N2) segment 2 (PB1) 4023.1 0.000000e+00 2240/2271 (98%)
EPI166282 A/swine/Illinois/SG-00244/2007 (A/H1N1) segment 2 (PB1) 4017.6 0.000000e+00 2231/2259 (98%)
EPI337463 A/swine//Ohio/02026/2008 (A/H1N1) segment 2 (PB1) 4012.0 0.000000e+00 2238/2271 (98%)
EPI295333 A/swine/South Dakota/152B/2009 (A/H1N2) segment 2 (PB1) 4006.5 0.000000e+00 2237/2271 (98%)
EPI281291 A/swine/Missouri/02060/2008 (A/H1N1) segment 2 (PB1) 4006.5 0.000000e+00 2237/2271 (98%)
EPI337415 A/swine/Minnesota/01862/2007 (A/H3N2) segment 2 (PB1) 3989.9 0.000000e+00 2234/2271 (98%)
EPI281290 A/swine/North Carolina/02023/2008 (A/H1N1) segment 2 (PB1) 3984.3 0.000000e+00 2233/2271 (98%)
EPI337591 A/swine/Illinois/01918/2007 (A/H1N1) segment 2 (PB1) 3973.3 0.000000e+00 2231/2271 (98%)
EPI101401 A/turkey/Ohio/313053/04 (A/H3N2) segment 2 (PB1) 3973.3 0.000000e+00 2232/2272 (98%)
EPI337599 A/swine/Illinois/01917/2007 (A/H1N1) segment 2 (PB1) 3967.7 0.000000e+00 2230/2271 (98%)
EPI337567 A/swine/Illinois/01981/2008 (A/H1N1) segment 2 (PB1) 3967.7 0.000000e+00 2230/2271 (98%)
EPI291840 A/Minnesota/09/2010 (A/H3N2) segment 2 (PB1) 3967.7 0.000000e+00 2230/2271 (98%)
EPI229378 A/turkey/OH/313053/2004 (A/H3N2) segment 2 (PB1) 3967.7 0.000000e+00 2231/2272 (98%)
EPI188112 A/swine/Illinois/Sg-00443/2008 (A/H1N1) segment 2 (PB1) 3967.7 0.000000e+00 2230/2271 (98%)
EPI293963 A/Minnesota/11/2010 (A/H3N2) segment 2 (PB1) 3958.5 0.000000e+00 2227/2271 (98%)
EPI244299 A/Kansas/13/2009 (A/H3N2) segment 2 (PB1) 3956.6 0.000000e+00 2228/2271 (98%)
EPI184446 A/swine/North Carolina/R08-001877-D08-013371/2008 (A/H3N2) segment 2 (PB1) 3956.6 0.000000e+00 2228/2271 (98%)
EPI312979 A/Pennsylvania/40/2010 (A/H3N2) segment 2 (PB1) 3951.1 0.000000e+00 2227/2271 (98%)
EPI291895 A/Wisconsin/12/2010 (A/H3N2) segment 2 (PB1) 3951.1 0.000000e+00 2227/2271 (98%)
EPI291867 A/Pennsylvania/14/2010 (A/H3N2) segment 2 (PB1) 3951.1 0.000000e+00 2227/2271 (98%)
EPI337957 A/swine/Illinois/02450/2008 (A/H0) segment 2 (PB1) 3945.6 0.000000e+00 2228/2273 (98%)
EPI337559 A/swine/Illinois/02251/2008 (A/H1N1) segment 2 (PB1) 3945.6 0.000000e+00 2227/2272 (98%)
EPI337391 A/swine/Nebraska/00722/2005 (A/H0) segment 2 (PB1) 3945.6 0.000000e+00 2227/2272 (98%)
EPI337347 A/swine/Iowa/01700/2007 (A/H3N2) segment 2 (PB1) 3945.6 0.000000e+00 2227/2272 (98%)
EPI103185 A/swine/Ontario/33853/2005 (A/H3N2) segment 2 (PB1) 3945.6 0.000000e+00 2228/2273 (98%)
EPI103113 A/Ontario/RV1273/2005 (A/H3N2) segment 2 (PB1) 3945.6 0.000000e+00 2228/2273 (98%)
EPI228920 A/turkey/Illinois/2004 (A/H3N2) segment 2 (PB1) 3940.0 0.000000e+00 2226/2272 (97%)
EPI227580 A/turkey/NC/353568/2005 (A/H3N2) segment 2 (PB1) 3940.0 0.000000e+00 2226/2272 (97%)
EPI158874 A/turkey/MN/366767/2005 (A/H3N2) segment 2 (PB1) 3940.0 0.000000e+00 2226/2272 (97%)
EPI103131 A/swine/Alberta/14722/2005 (A/H3N2) segment 2 (PB1) 3940.0 0.000000e+00 2227/2273 (97%)
EPI98708 A/swine/MI/PU243/04 (A/H3N1) segment 2 (PB1) 3940.0 0.000000e+00 2226/2272 (97%)
EPI337447 A/swine/Minnesota/00611/2005 (A/H3N2) segment 2 (PB1) 3934.5 0.000000e+00 2226/2273 (97%)
EPI335030 A/swine/North Carolina/38448-1/2005 (A/H1N1) segment 2 (PB1) 3932.6 0.000000e+00 2224/2271 (97%)
EPI182822 A/swine/Quebec/4001/2005 (A/H3N2) segment 2 (PB1) 3930.8 0.000000e+00 2225/2273 (97%)
EPI314337 A/turkey/BC/1529-3/2005 (A/H3N2) segment 2 (PB1) 3928.9 0.000000e+00 2225/2273 (97%)
EPI302680 A/swine/Pennsylvania/62170-3/2010 (A/H3N2) segment 2 (PB1) 3928.9 0.000000e+00 2223/2271 (97%)
EPI337607 A/swine/Illinois/02510/2009 (A/H1N1) segment 2 (PB1) 3923.4 0.000000e+00 2223/2272 (97%)
EPI337583 A/swine/Illinois/02385/2008 (A/H1N1) segment 2 (PB1) 3923.4 0.000000e+00 2223/2272 (97%)
EPI337575 A/swine/Illinois/02695/2009 (A/H1N1) segment 2 (PB1) 3923.4 0.000000e+00 2223/2272 (97%)
EPI337368 A/swine/Minnesota/00709/2005 (A/H3N2) segment 2 (PB1) 3923.4 0.000000e+00 2224/2273 (97%)
EPI103167 A/swine/Manitoba/12707/2005 (A/H3N2) segment 2 (PB1) 3923.4 0.000000e+00 2224/2273 (97%)
EPI188120 A/swine/Illinois/Sg-00445/2008 (A/H1N1) segment 2 (PB1) 3921.6 0.000000e+00 2206/2248 (98%)
EPI302668 A/swine/Pennsylvania/62170-1/2010 (A/H3N2) segment 2 (PB1) 3917.9 0.000000e+00 2221/2271 (97%)
EPI337503 A/swine/Minnesota/SG1144/2006 (A/H1N1) segment 2 (PB1) 3910.5 0.000000e+00 2221/2272 (97%)
EPI281295 A/swine/Ohio/02026/2008 (A/H1N1) segment 2 (PB1) 3910.5 0.000000e+00 2223/2274 (97%)
EPI153520 A/swine/Ohio/C62006/06 (A/H1N1) segment 2 (PB1) 3908.6 0.000000e+00 2218/2269 (97%)
EPI289639 A/swine/Minnesota/5947/2007 (A/H3N2) segment 2 (PB1) 3906.8 0.000000e+00 2221/2273 (97%)
EPI177834 A/swine/Minnesota/578/2007 (A/H3N2) segment 2 (PB1) 3903.1 0.000000e+00 2220/2273 (97%)
EPI166251 A/swine/Minnesota/SG-00234/2005 (A/H3N2) segment 2 (PB1) 3903.1 0.000000e+00 2213/2262 (97%)
EPI177832 A/swine/Minnesota/66853/2006 (A/H3N2) segment 2 (PB1) 3901.2 0.000000e+00 2221/2274 (97%)
EPI222680 A/swine/Oklahoma/011506/2007 (A/H3N2) segment 2 (PB1) 3895.7 0.000000e+00 2218/2272 (97%)
EPI103149 A/swine/British Columbia/28103/2005 (A/H3N2) segment 2 (PB1) 3895.7 0.000000e+00 2219/2273 (97%)
EPI337535 A/swine/Minnesota/001332/2006 (A/H3N2) segment 2 (PB1) 3893.9 0.000000e+00 2219/2273 (97%)
EPI337471 A/swine/Minnesota/01358/2006 (A/H1N1) segment 2 (PB1) 3890.2 0.000000e+00 2218/2273 (97%)
EPI177842 A/swine/Minnesota/2411/2007 (A/H1N2) segment 2 (PB1) 3890.2 0.000000e+00 2219/2274 (97%)
EPI103203 A/turkey/Ontario/31232/2005 (A/H3N2) segment 2 (PB1) 3890.2 0.000000e+00 2218/2273 (97%)
EPI98724 A/swine/IN/PU542/04 (A/H3N1) segment 2 (PB1) 3890.2 0.000000e+00 2217/2272 (97%)
EPI337551 A/swine/Minnesota/00484/2005 (A/H3N2) segment 2 (PB1) 3884.6 0.000000e+00 2217/2273 (97%)
EPI337527 A/swine/Minnesota/001581/2007 (A/H1N1) segment 2 (PB1) 3879.1 0.000000e+00 2215/2272 (97%)
EPI289640 A/swine/Minnesota/65767/2006 (A/H3N2) segment 2 (PB1) 3879.1 0.000000e+00 2215/2272 (97%)
EPI281288 A/swine/Nebraska/02013/2008 (A/H1N1) segment 2 (PB1) 3879.1 0.000000e+00 2217/2274 (97%)
EPI222650 A/swine/Minnesota/1145/2007 (A/H3N2) segment 2 (PB1) 3879.1 0.000000e+00 2216/2273 (97%)
EPI337519 A/swine/Minnesota/001444/2007 (A/H3N2) segment 2 (PB1) 3873.5 0.000000e+00 2214/2272 (97%)
EPI177841 A/swine/Minnesota/1900/2007 (A/H1N2) segment 2 (PB1) 3873.5 0.000000e+00 2216/2274 (97%)
EPI177838 A/swine/Minnesota/7931/2007 (A/H3N2) segment 2 (PB1) 3873.5 0.000000e+00 2215/2273 (97%)
EPI337381 A/swine/Minnesota/001200/2006 (A/H1N1) segment 2 (PB1) 3868.0 0.000000e+00 2214/2273 (97%)
EPI291901 A/Wisconsin/87/2005 (A/H1N1) segment 2 (PB1) 3868.0 0.000000e+00 2213/2272 (97%)
EPI185086 A/swine/Minnesota/SG-00239/2007 (A/H1N2) segment 2 (PB1) 3868.0 0.000000e+00 2216/2275 (97%)
EPI177844 A/swine/Minnesota/3239/2007 (A/H1N2) segment 2 (PB1) 3868.0 0.000000e+00 2215/2274 (97%)
EPI182829 A/mink/Nova Scotia/1055488/2007 (A/H3N2) segment 2 (PB1) 3862.5 0.000000e+00 2214/2274 (97%)
EPI179352 A/swine/IL/07003243/2007 (A/H1N2) segment 2 (PB1) 3862.5 0.000000e+00 2214/2274 (97%)
EPI177843 A/swine/Minnesota/2728/2007 (A/H1N2) segment 2 (PB1) 3862.5 0.000000e+00 2212/2272 (97%)
EPI177840 A/swine/Minnesota/66743/2006 (A/H1N2) segment 2 (PB1) 3862.5 0.000000e+00 2212/2272 (97%)
EPI166260 A/swine/Minnesota/SG-00237/2007 (A/H3N2) segment 2 (PB1) 3860.6 0.000000e+00 2203/2259 (97%)
EPI337423 A/swine/Minnesota/02053/2008 (A/H1N1) segment 2 (PB1) 3856.9 0.000000e+00 2212/2273 (97%)
EPI281292 A/swine/Minnesota/02011/2008 (A/H1N2) segment 2 (PB1) 3856.9 0.000000e+00 2213/2274 (97%)
EPI222672 A/swine/Oklahoma/008722/2007 (A/H3N2) segment 2 (PB1) 3856.9 0.000000e+00 2213/2274 (97%)
EPI177849 A/swine/Minnesota/69353/2006 (A/H1N1) segment 2 (PB1) 3856.9 0.000000e+00 2212/2273 (97%)
EPI177837 A/swine/Minnesota/7209/2007 (A/H3N2) segment 2 (PB1) 3856.9 0.000000e+00 2211/2272 (97%)
EPI291887 A/Texas/14/2008 (A/H1N1) segment 2 (PB1) 3855.1 0.000000e+00 2213/2274 (97%)
EPI166270 A/swine/Minnesota/SG-00240/2007 (A/H1N1) segment 2 (PB1) 3855.1 0.000000e+00 2202/2259 (97%)

This is the other parent for H3N2pdm11 (contributed PB1, N2, M gene).

The trH1N2 isolates also have human external genes (H1 and N2 are from seasonal H1 and N2 sequences from 2003). The parental sequence from Ohio only has one gene (M) from H1N1pdm09.

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niman
PostPosted: Tue Dec 06, 2011 6:45 pm 
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Commentary

http://www.recombinomics.com/News/12061 ... pdm11.html

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niman
PostPosted: Tue Dec 06, 2011 8:56 pm 
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Posts: 28245
Location: Pittsburgh, PA USA
PB1 matches at Genbank

HQ833572.1 Influenza A virus (A/swine/Ohio/FAH2-1/2008(H1N1)) segment 2 polymerase PB1 (PB1) gene, partial cds; and PB1-F2 protein (PB1-F2) gene, complete cds 4096 4096 100% 0.0 100%
HQ833564.1 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) segment 2 polymerase PB1 (PB1) gene, partial cds; and PB1-F2 protein (PB1-F2) gene, complete cds 4096 4096 100% 0.0 100%
JQ070790.1 Influenza A virus (A/Indiana/10/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 4046 4046 100% 0.0 99%
JQ070782.1 Influenza A virus (A/Indiana/10/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 4046 4046 100% 0.0 99%
JN638731.1 Influenza A virus (A/Indiana/08/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds
JN655554.1| Influenza A virus (A/Indiana/08/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds
JQ070798.1| Influenza A virus (A/Indiana/08/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 4046 4046 100% 0.0 99%
JN655539.1 Influenza A virus (A/Pennsylvania/09/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 4042 4042 100% 0.0 99%
JN992755.1 Influenza A virus (A/Indiana/10/2011(H3N2)) segment 2 polymerase PB1 (PB1) gene, partial cds; and PB1-F2 protein (PB1-F2) gene, complete cds 4039 4039 99% 0.0 99%
JN940420.1 Influenza A virus (A/swine/NY/A01104005/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 4033 4033 100% 0.0 99%
JN866184.1 Influenza A virus (A/Maine/06/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 4024 4024 100% 0.0 99%
JQ070774.1 Influenza A virus (A/Iowa/09/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 4010 4010 100% 0.0 99%
JQ070758.1 Influenza A virus (A/Iowa/07/2011(H3N2)) segment 2 polymerase PB1 (PB1) gene, partial cds; and PB1-F2 protein (PB1-F2) gene, complete cds 3992 3992 99% 0.0 99%
GQ484357.1 Influenza A virus (A/swine/Kansas/77778/2007(H1N1)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3992 3992 100% 0.0 99%
EU604692.1 Influenza A virus (A/swine/OH/511445/2007(H1N1)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3974 3974 100% 0.0 99%
EU409945.1 Influenza A virus (A/swine/Ohio/24366/07(H1N1)) polymerase PB1 (PB1) gene, complete cds 3974 3974 100% 0.0 99%
JQ070766.1 Influenza A virus (A/Iowa/08/2011(H3N2)) segment 2 polymerase PB1 (PB1) gene, partial cds; and PB1-F2 protein (PB1-F2) gene, complete cds 3965 3965 98% 0.0 99%
EU692894.1 Influenza A virus (A/swine/Minnesota/1300/2007(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3956 3956 100% 0.0 99%
CY035446.1 Influenza A virus (A/swine/Illinois/SG-00244/2007(H1N1)) segment 2 sequence 3948 3948 99% 0.0 99%
CY099165.1 Influenza A virus (A/swine//Ohio/02026/2008(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3947 3947 100% 0.0 99%
HQ833580.1 Influenza A virus (A/swine/Ohio/FAH1-1/2007(H1N1)) segment 2 polymerase PB1 (PB1) gene, partial cds; and PB1-F2 protein (PB1-F2) gene, complete cds 3945 3945 100% 0.0 98%
HQ840336.1 Influenza A virus (A/swine/South Dakota/152B/2009(H1N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3943 3943 100% 0.0 99%
HM461808.1 Influenza A virus (A/swine/Missouri/02060/2008(H1N1)) segment 2 polymerase PB1 (PB1) gene, partial cds 3943 3943 100% 0.0 99%
CY099117.1 Influenza A virus (A/swine/Minnesota/01862/2007(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3929 3929 100% 0.0 98%
HM461816.1 Influenza A virus (A/swine/North Carolina/02023/2008(H1N1)) segment 2 polymerase PB1 (PB1) gene, partial cds 3925 3925 100% 0.0 98%
CY099293.1 Influenza A virus (A/swine/Illinois/01918/2007(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3916 3916 100% 0.0 98%
DQ335777.1 Influenza A virus (A/turkey/Ohio/313053/04(H3N2)) polymerase PB1 (PB1) gene, complete cds 3916 3916 100% 0.0 98%
CY099269.1 Influenza A virus (A/swine/Illinois/01981/2008(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds
CY099301.1| Influenza A virus (A/swine/Illinois/01917/2007(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3910 3910 100% 0.0 98%
CY042310.1 Influenza A virus (A/swine/Illinois/Sg-00443/2008(H1N1)) segment 2 sequence 3910 3910 100% 0.0 98%
EU735824.1 Influenza A virus (A/turkey/OH/313053/2004(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3910 3910 100% 0.0 98%
CY099075.1 Influenza A virus (A/swine/Illinois/02238/2008(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3907 3907 100% 0.0 98%
GU937745.1 Influenza A virus (A/Kansas/13/2009(H3N2)) segment 2 polymerase PB1 (PB1) gene, complete cds 3901 3901 100% 0.0 98%
CY041845.1 Influenza A virus (A/swine/North Carolina/R08-001877-D08-013371/2008 (H3N2)) segment 2 sequence 3901 3901 100% 0.0 98%
CY099261.1 Influenza A virus (A/swine/Illinois/02251/2008(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3892 3892 100% 0.0 98%
CY099093.1 Influenza A virus (A/swine/Nebraska/00722/2005(mixed)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3892 3892 100% 0.0 98%
CY099059.1 Influenza A virus (A/swine/Illinois/02450/2008(mixed)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3892 3892 100% 0.0 98%
CY099033.1 Influenza A virus (A/swine/Iowa/01700/2007(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3892 3892 100% 0.0 98%
DQ469988.1 Influenza A virus (A/swine/Ontario/33853/2005(H3N2)) polymerase subunit PB1 (PB1) gene, complete cds 3892 3892 100% 0.0 98%
DQ469956.1 Influenza A virus (A/Ontario/RV1273/2005(H3N2)) polymerase subunit PB1 (PB1) gene, complete cds 3892 3892 100% 0.0 98%
EU743216.1 Influenza A virus (A/turkey/MN/366767/2005(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3889 3889 100% 0.0 98%
EU735832.1 Influenza A virus (A/turkey/NC/353568/2005(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3889 3889 100% 0.0 98%
EF551043.1 Influenza A virus (A/turkey/Illinois/2004(H3N2)) segment 2 polymerase PB1 (PB1) gene, complete cds 3889 3889 100% 0.0 98%
DQ469964.1 Influenza A virus (A/swine/Alberta/14722/2005(H3N2)) polymerase subunit PB1 (PB1) gene, complete cds 3889 3889 100% 0.0 98%
DQ150423.1 Influenza A virus (A/swine/MI/PU243/04 (H3N1)) polymerase (PB1) gene, complete cds 3889 3889 100% 0.0 98%
CY099149.1 Influenza A virus (A/swine/Minnesota/00611/2005(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3883 3883 100% 0.0 98%
CY098507.1 Influenza A virus (A/swine/North Carolina/38448-1/2005(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3882 3882 99% 0.0 98%
HQ825164.1 Influenza A virus (A/turkey/BC/1529-3/2005(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3880 3880 100% 0.0 98%
HQ734220.1 Influenza A virus (A/swine/Pennsylvania/62170-3/2010(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3880 3880 100% 0.0 98%
EU826549.2 Influenza A virus (A/swine/Quebec/4001/2005(H3N2)) segment 2 polymerase PB1 (PB1) gene, complete cds 3880 3880 100% 0.0 98%
CY099309.1 Influenza A virus (A/swine/Illinois/02510/2009(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3874 3874 100% 0.0 98%
CY099285.1 Influenza A virus (A/swine/Illinois/02385/2008(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3874 3874 100% 0.0 98%
CY099277.1 Influenza A virus (A/swine/Illinois/02695/2009(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3874 3874 100% 0.0 98%
CY099067.1 Influenza A virus (A/swine/Minnesota/00709/2005(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3874 3874 100% 0.0 98%
DQ469980.1 Influenza A virus (A/swine/Manitoba/12707/2005(H3N2)) polymerase subunit PB1 (PB1) gene, complete cds 3874 3874 100% 0.0 98%
HQ734208.1 Influenza A virus (A/swine/Pennsylvania/62170-1/2010(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3871 3871 100% 0.0 98%
CY042318.1 Influenza A virus (A/swine/Illinois/Sg-00445/2008(H1N1)) segment 2 sequence 3867 3867 98% 0.0 98%
CY099205.1 Influenza A virus (A/swine/Minnesota/SG1144/2006(H1N1)) polymerase PB1 (PB1) and putative PB1-F2 protein (PB1-F2) genes, complete cds 3864 3864 99% 0.0 98%
HM461776.1 Influenza A virus (A/swine/Ohio/02026/2008(H1N1)) segment 2 polymerase PB1 (PB1) gene, partial cds 3864 3864 99% 0.0 98%
HQ315644.1 Influenza A virus (A/swine/Minnesota/5947/2007(H3N2)) segment 2 polymerase PB1 (PB1) gene, complete cds 3862 3862 100% 0.0 98%
EU409959.1 Influenza A virus (A/swine/Ohio/C62006/06(H1N1)) polymerase PB1 (PB1) gene, complete cds 3862 3862 99% 0.0 98%
EU692892.1 Influenza A virus (A/swine/Minnesota/578/2007(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3858 3858 100% 0.0 98%
EU692890.1 Influenza A virus (A/swine/Minnesota/66853/2006(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3856 3856 100% 0.0 98%
CY035415.1 Influenza A virus (A/swine/Minnesota/SG-00234/2005(H3N2)) segment 2 sequence 3855 3855 99% 0.0 98%
CY045573.1 Influenza A virus (A/swine/Oklahoma/011506/2007(H3N2)) segment 2 sequence 3853 3853 100% 0.0 98%
DQ469972.1 Influenza A virus (A/swine/British Columbia/28103/2005(H3N2)) polymerase subunit PB1 (PB1) gene, complete cds 3853 3853 100% 0.0 98%
CY099237.1 Influenza A virus (A/swine/Minnesota/001332/2006(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3851 3851 99% 0.0 98%
CY099173.1 Influenza A virus (A/swine/Minnesota/01358/2006(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3847 3847 100% 0.0 98%
EU692900.1 Influenza A virus (A/swine/Minnesota/2411/2007(H1N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3847 3847 100% 0.0 98%
DQ469996.1 Influenza A virus (A/turkey/Ontario/31232/2005(H3N2)) polymerase subunit PB1 (PB1) gene, complete cds 3847 3847 100% 0.0 98%
DQ150431.1 Influenza A virus (A/swine/IN/PU542/04 (H3N1)) polymerase (PB1) gene, complete cds 3847 3847 100% 0.0 98%
CY099253.1 Influenza A virus (A/swine/Minnesota/00484/2005(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3844 3844 100% 0.0 98%
CY099229.1 Influenza A virus (A/swine/Minnesota/001581/2007(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3838 3838 100% 0.0 97%
CY099041.1 Influenza A virus (A/swine/Minnesota/01146/2006(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3838 3838 100% 0.0 97%
HQ315645.1 Influenza A virus (A/swine/Minnesota/65767/2006(H3N2)) segment 2 polymerase PB1 (PB1) gene, complete cds 3838 3838 100% 0.0 97%
HM461832.1 Influenza A virus (A/swine/Nebraska/02013/2008(H1N1)) segment 2 polymerase PB1 (PB1) gene, partial cds 3838 3838 100% 0.0 97%
FJ410138.1 Influenza A virus (A/swine/Minnesota/1145/2007(H3N2)) segment 2, complete sequence 3838 3838 100% 0.0 97%
CY099221.1 Influenza A virus (A/swine/Minnesota/001444/2007(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3835 3835 100% 0.0 97%
EU692899.1 Influenza A virus (A/swine/Minnesota/1900/2007(H1N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3835 3835 100% 0.0 97%
EU692896.1 Influenza A virus (A/swine/Minnesota/7931/2007(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3835 3835 100% 0.0 97%
CY099083.1 Influenza A virus (A/swine/Minnesota/001200/2006(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3829 3829 100% 0.0 97%
CY035431.2 Influenza A virus (A/swine/Minnesota/SG-00239/2007(H1N2)) segment 2 sequence 3829 3829 100% 0.0 97%
EU692902.1 Influenza A virus (A/swine/Minnesota/3239/2007(H1N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3829 3829 100% 0.0 97%
EU826557.2 Influenza A virus (A/mink/Nova Scotia/1055488/2007(H3N2)) segment 2 polymerase PB1 (PB1) gene, complete cds 3826 3826 100% 0.0 97%
FJ638312.1 Influenza A virus (A/swine/IL/07003243/2007(H1N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3826 3826 100% 0.0 97%
EU692901.1 Influenza A virus (A/swine/Minnesota/2728/2007(H1N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3826 3826 100% 0.0 97%
EU692898.1 Influenza A virus (A/swine/Minnesota/66743/2006(H1N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3826 3826 100% 0.0 97%
CY099125.1 Influenza A virus (A/swine/Minnesota/02053/2008(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3820 3820 100% 0.0 97%
HM461800.1 Influenza A virus (A/swine/Minnesota/02011/2008(H1N2)) segment 2 polymerase PB1 (PB1) gene, partial cds 3820 3820 100% 0.0 97%
CY045565.1 Influenza A virus (A/swine/Oklahoma/008722/2007(H3N2)) segment 2 sequence 3820 3820 100% 0.0 97%
EU692907.1 Influenza A virus (A/swine/Minnesota/69353/2006(H1N1)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3820 3820 100% 0.0 97%
EU692895.1 Influenza A virus (A/swine/Minnesota/7209/2007(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3820 3820 100% 0.0 97%
CY035424.1 Influenza A virus (A/swine/Minnesota/SG-00237/2007(H3N2)) segment 2 sequence 3820 3820 99% 0.0 98%
CY035434.1 Influenza A virus (A/swine/Minnesota/SG-00240/2007(H1N1)) segment 2 sequence 3815 3815 99% 0.0 97%
HQ734214.1 Influenza A virus (A/swine/Pennsylvania/62170-2/2010(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3811 3811 100% 0.0 97%
EU692897.1 Influenza A virus (A/swine/Minnesota/64585/2006(H1N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3811 3811 100% 0.0 97%
JF714007.1 Influenza A virus (A/SW/SK/11-16/2009(H1N1)) segment 2 polymerase PB1 (PB1) gene, complete cds 3808 3808 100% 0.0 97%
HQ734226.1 Influenza A virus (A/swine/Pennsylvania/62170-4/2010(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3808 3808 100% 0.0 97%
HM461760.1 Influenza A virus (A/swine/Minnesota/02053/2008(H1N1)) segment 2 polymerase PB1 (PB1) gene, partial cds 3808 3808 100% 0.0 97%
GQ457567.1 Influenza A virus (A/Saskatchewan/5351/2009(H1N1)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3808 3808 100% 0.0 97%
EU399757.1 Influenza A virus (A/Ontario/1252/2007(H3N2)) polymerase subunit PB1 (PB1) gene, complete cds 3808 3808 100% 0.0 97%
HQ825233.1 Influenza A virus (A/swine/QC/1840-2/2009(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3802 3802 100% 0.0 97%
CY035428.1 Influenza A virus (A/swine/Minnesota/SG-00238/2006(H1N1)) segment 2 sequence 3802 3802 99% 0.0 97%

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PostPosted: Wed Dec 07, 2011 3:48 am 
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niman wrote:
PB1 matches at Genbank

HQ833572.1 Influenza A virus (A/swine/Ohio/FAH2-1/2008(H1N1)) segment 2 polymerase PB1 (PB1) gene, partial cds; and PB1-F2 protein (PB1-F2) gene, complete cds 4096 4096 100% 0.0 100%
HQ833564.1 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) segment 2 polymerase PB1 (PB1) gene, partial cds; and PB1-F2 protein (PB1-F2) gene, complete cds 4096 4096 100% 0.0 100%
JQ070790.1 Influenza A virus (A/Indiana/10/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 4046 4046 100% 0.0 99%
JQ070782.1 Influenza A virus (A/Indiana/10/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 4046 4046 100% 0.0 99%
JN638731.1 Influenza A virus (A/Indiana/08/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds
JN655554.1| Influenza A virus (A/Indiana/08/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds
JQ070798.1| Influenza A virus (A/Indiana/08/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 4046 4046 100% 0.0 99%
JN655539.1 Influenza A virus (A/Pennsylvania/09/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 4042 4042 100% 0.0 99%
JN992755.1 Influenza A virus (A/Indiana/10/2011(H3N2)) segment 2 polymerase PB1 (PB1) gene, partial cds; and PB1-F2 protein (PB1-F2) gene, complete cds 4039 4039 99% 0.0 99%
JN940420.1 Influenza A virus (A/swine/NY/A01104005/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 4033 4033 100% 0.0 99%
JN866184.1 Influenza A virus (A/Maine/06/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 4024 4024 100% 0.0 99%
JQ070774.1 Influenza A virus (A/Iowa/09/2011(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 4010 4010 100% 0.0 99%
JQ070758.1 Influenza A virus (A/Iowa/07/2011(H3N2)) segment 2 polymerase PB1 (PB1) gene, partial cds; and PB1-F2 protein (PB1-F2) gene, complete cds 3992 3992 99% 0.0 99%
GQ484357.1 Influenza A virus (A/swine/Kansas/77778/2007(H1N1)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3992 3992 100% 0.0 99%
EU604692.1 Influenza A virus (A/swine/OH/511445/2007(H1N1)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3974 3974 100% 0.0 99%
EU409945.1 Influenza A virus (A/swine/Ohio/24366/07(H1N1)) polymerase PB1 (PB1) gene, complete cds 3974 3974 100% 0.0 99%
JQ070766.1 Influenza A virus (A/Iowa/08/2011(H3N2)) segment 2 polymerase PB1 (PB1) gene, partial cds; and PB1-F2 protein (PB1-F2) gene, complete cds 3965 3965 98% 0.0 99%
EU692894.1 Influenza A virus (A/swine/Minnesota/1300/2007(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3956 3956 100% 0.0 99%
CY035446.1 Influenza A virus (A/swine/Illinois/SG-00244/2007(H1N1)) segment 2 sequence 3948 3948 99% 0.0 99%
CY099165.1 Influenza A virus (A/swine//Ohio/02026/2008(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3947 3947 100% 0.0 99%
HQ833580.1 Influenza A virus (A/swine/Ohio/FAH1-1/2007(H1N1)) segment 2 polymerase PB1 (PB1) gene, partial cds; and PB1-F2 protein (PB1-F2) gene, complete cds 3945 3945 100% 0.0 98%
HQ840336.1 Influenza A virus (A/swine/South Dakota/152B/2009(H1N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3943 3943 100% 0.0 99%
HM461808.1 Influenza A virus (A/swine/Missouri/02060/2008(H1N1)) segment 2 polymerase PB1 (PB1) gene, partial cds 3943 3943 100% 0.0 99%
CY099117.1 Influenza A virus (A/swine/Minnesota/01862/2007(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3929 3929 100% 0.0 98%
HM461816.1 Influenza A virus (A/swine/North Carolina/02023/2008(H1N1)) segment 2 polymerase PB1 (PB1) gene, partial cds 3925 3925 100% 0.0 98%
CY099293.1 Influenza A virus (A/swine/Illinois/01918/2007(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3916 3916 100% 0.0 98%
DQ335777.1 Influenza A virus (A/turkey/Ohio/313053/04(H3N2)) polymerase PB1 (PB1) gene, complete cds 3916 3916 100% 0.0 98%
CY099269.1 Influenza A virus (A/swine/Illinois/01981/2008(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds
CY099301.1| Influenza A virus (A/swine/Illinois/01917/2007(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3910 3910 100% 0.0 98%
CY042310.1 Influenza A virus (A/swine/Illinois/Sg-00443/2008(H1N1)) segment 2 sequence 3910 3910 100% 0.0 98%
EU735824.1 Influenza A virus (A/turkey/OH/313053/2004(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3910 3910 100% 0.0 98%
CY099075.1 Influenza A virus (A/swine/Illinois/02238/2008(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3907 3907 100% 0.0 98%
GU937745.1 Influenza A virus (A/Kansas/13/2009(H3N2)) segment 2 polymerase PB1 (PB1) gene, complete cds 3901 3901 100% 0.0 98%
CY041845.1 Influenza A virus (A/swine/North Carolina/R08-001877-D08-013371/2008 (H3N2)) segment 2 sequence 3901 3901 100% 0.0 98%
CY099261.1 Influenza A virus (A/swine/Illinois/02251/2008(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3892 3892 100% 0.0 98%
CY099093.1 Influenza A virus (A/swine/Nebraska/00722/2005(mixed)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3892 3892 100% 0.0 98%
CY099059.1 Influenza A virus (A/swine/Illinois/02450/2008(mixed)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3892 3892 100% 0.0 98%
CY099033.1 Influenza A virus (A/swine/Iowa/01700/2007(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3892 3892 100% 0.0 98%
DQ469988.1 Influenza A virus (A/swine/Ontario/33853/2005(H3N2)) polymerase subunit PB1 (PB1) gene, complete cds 3892 3892 100% 0.0 98%
DQ469956.1 Influenza A virus (A/Ontario/RV1273/2005(H3N2)) polymerase subunit PB1 (PB1) gene, complete cds 3892 3892 100% 0.0 98%
EU743216.1 Influenza A virus (A/turkey/MN/366767/2005(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3889 3889 100% 0.0 98%
EU735832.1 Influenza A virus (A/turkey/NC/353568/2005(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3889 3889 100% 0.0 98%
EF551043.1 Influenza A virus (A/turkey/Illinois/2004(H3N2)) segment 2 polymerase PB1 (PB1) gene, complete cds 3889 3889 100% 0.0 98%
DQ469964.1 Influenza A virus (A/swine/Alberta/14722/2005(H3N2)) polymerase subunit PB1 (PB1) gene, complete cds 3889 3889 100% 0.0 98%
DQ150423.1 Influenza A virus (A/swine/MI/PU243/04 (H3N1)) polymerase (PB1) gene, complete cds 3889 3889 100% 0.0 98%
CY099149.1 Influenza A virus (A/swine/Minnesota/00611/2005(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3883 3883 100% 0.0 98%
CY098507.1 Influenza A virus (A/swine/North Carolina/38448-1/2005(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3882 3882 99% 0.0 98%
HQ825164.1 Influenza A virus (A/turkey/BC/1529-3/2005(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3880 3880 100% 0.0 98%
HQ734220.1 Influenza A virus (A/swine/Pennsylvania/62170-3/2010(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3880 3880 100% 0.0 98%
EU826549.2 Influenza A virus (A/swine/Quebec/4001/2005(H3N2)) segment 2 polymerase PB1 (PB1) gene, complete cds 3880 3880 100% 0.0 98%
CY099309.1 Influenza A virus (A/swine/Illinois/02510/2009(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3874 3874 100% 0.0 98%
CY099285.1 Influenza A virus (A/swine/Illinois/02385/2008(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3874 3874 100% 0.0 98%
CY099277.1 Influenza A virus (A/swine/Illinois/02695/2009(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3874 3874 100% 0.0 98%
CY099067.1 Influenza A virus (A/swine/Minnesota/00709/2005(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3874 3874 100% 0.0 98%
DQ469980.1 Influenza A virus (A/swine/Manitoba/12707/2005(H3N2)) polymerase subunit PB1 (PB1) gene, complete cds 3874 3874 100% 0.0 98%
HQ734208.1 Influenza A virus (A/swine/Pennsylvania/62170-1/2010(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3871 3871 100% 0.0 98%
CY042318.1 Influenza A virus (A/swine/Illinois/Sg-00445/2008(H1N1)) segment 2 sequence 3867 3867 98% 0.0 98%
CY099205.1 Influenza A virus (A/swine/Minnesota/SG1144/2006(H1N1)) polymerase PB1 (PB1) and putative PB1-F2 protein (PB1-F2) genes, complete cds 3864 3864 99% 0.0 98%
HM461776.1 Influenza A virus (A/swine/Ohio/02026/2008(H1N1)) segment 2 polymerase PB1 (PB1) gene, partial cds 3864 3864 99% 0.0 98%
HQ315644.1 Influenza A virus (A/swine/Minnesota/5947/2007(H3N2)) segment 2 polymerase PB1 (PB1) gene, complete cds 3862 3862 100% 0.0 98%
EU409959.1 Influenza A virus (A/swine/Ohio/C62006/06(H1N1)) polymerase PB1 (PB1) gene, complete cds 3862 3862 99% 0.0 98%
EU692892.1 Influenza A virus (A/swine/Minnesota/578/2007(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3858 3858 100% 0.0 98%
EU692890.1 Influenza A virus (A/swine/Minnesota/66853/2006(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3856 3856 100% 0.0 98%
CY035415.1 Influenza A virus (A/swine/Minnesota/SG-00234/2005(H3N2)) segment 2 sequence 3855 3855 99% 0.0 98%
CY045573.1 Influenza A virus (A/swine/Oklahoma/011506/2007(H3N2)) segment 2 sequence 3853 3853 100% 0.0 98%
DQ469972.1 Influenza A virus (A/swine/British Columbia/28103/2005(H3N2)) polymerase subunit PB1 (PB1) gene, complete cds 3853 3853 100% 0.0 98%
CY099237.1 Influenza A virus (A/swine/Minnesota/001332/2006(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3851 3851 99% 0.0 98%
CY099173.1 Influenza A virus (A/swine/Minnesota/01358/2006(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3847 3847 100% 0.0 98%
EU692900.1 Influenza A virus (A/swine/Minnesota/2411/2007(H1N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3847 3847 100% 0.0 98%
DQ469996.1 Influenza A virus (A/turkey/Ontario/31232/2005(H3N2)) polymerase subunit PB1 (PB1) gene, complete cds 3847 3847 100% 0.0 98%
DQ150431.1 Influenza A virus (A/swine/IN/PU542/04 (H3N1)) polymerase (PB1) gene, complete cds 3847 3847 100% 0.0 98%
CY099253.1 Influenza A virus (A/swine/Minnesota/00484/2005(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3844 3844 100% 0.0 98%
CY099229.1 Influenza A virus (A/swine/Minnesota/001581/2007(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3838 3838 100% 0.0 97%
CY099041.1 Influenza A virus (A/swine/Minnesota/01146/2006(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3838 3838 100% 0.0 97%
HQ315645.1 Influenza A virus (A/swine/Minnesota/65767/2006(H3N2)) segment 2 polymerase PB1 (PB1) gene, complete cds 3838 3838 100% 0.0 97%
HM461832.1 Influenza A virus (A/swine/Nebraska/02013/2008(H1N1)) segment 2 polymerase PB1 (PB1) gene, partial cds 3838 3838 100% 0.0 97%
FJ410138.1 Influenza A virus (A/swine/Minnesota/1145/2007(H3N2)) segment 2, complete sequence 3838 3838 100% 0.0 97%
CY099221.1 Influenza A virus (A/swine/Minnesota/001444/2007(H3N2)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3835 3835 100% 0.0 97%
EU692899.1 Influenza A virus (A/swine/Minnesota/1900/2007(H1N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3835 3835 100% 0.0 97%
EU692896.1 Influenza A virus (A/swine/Minnesota/7931/2007(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3835 3835 100% 0.0 97%
CY099083.1 Influenza A virus (A/swine/Minnesota/001200/2006(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3829 3829 100% 0.0 97%
CY035431.2 Influenza A virus (A/swine/Minnesota/SG-00239/2007(H1N2)) segment 2 sequence 3829 3829 100% 0.0 97%
EU692902.1 Influenza A virus (A/swine/Minnesota/3239/2007(H1N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3829 3829 100% 0.0 97%
EU826557.2 Influenza A virus (A/mink/Nova Scotia/1055488/2007(H3N2)) segment 2 polymerase PB1 (PB1) gene, complete cds 3826 3826 100% 0.0 97%
FJ638312.1 Influenza A virus (A/swine/IL/07003243/2007(H1N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3826 3826 100% 0.0 97%
EU692901.1 Influenza A virus (A/swine/Minnesota/2728/2007(H1N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3826 3826 100% 0.0 97%
EU692898.1 Influenza A virus (A/swine/Minnesota/66743/2006(H1N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3826 3826 100% 0.0 97%
CY099125.1 Influenza A virus (A/swine/Minnesota/02053/2008(H1N1)) polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3820 3820 100% 0.0 97%
HM461800.1 Influenza A virus (A/swine/Minnesota/02011/2008(H1N2)) segment 2 polymerase PB1 (PB1) gene, partial cds 3820 3820 100% 0.0 97%
CY045565.1 Influenza A virus (A/swine/Oklahoma/008722/2007(H3N2)) segment 2 sequence 3820 3820 100% 0.0 97%
EU692907.1 Influenza A virus (A/swine/Minnesota/69353/2006(H1N1)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3820 3820 100% 0.0 97%
EU692895.1 Influenza A virus (A/swine/Minnesota/7209/2007(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3820 3820 100% 0.0 97%
CY035424.1 Influenza A virus (A/swine/Minnesota/SG-00237/2007(H3N2)) segment 2 sequence 3820 3820 99% 0.0 98%
CY035434.1 Influenza A virus (A/swine/Minnesota/SG-00240/2007(H1N1)) segment 2 sequence 3815 3815 99% 0.0 97%
HQ734214.1 Influenza A virus (A/swine/Pennsylvania/62170-2/2010(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3811 3811 100% 0.0 97%
EU692897.1 Influenza A virus (A/swine/Minnesota/64585/2006(H1N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3811 3811 100% 0.0 97%
JF714007.1 Influenza A virus (A/SW/SK/11-16/2009(H1N1)) segment 2 polymerase PB1 (PB1) gene, complete cds 3808 3808 100% 0.0 97%
HQ734226.1 Influenza A virus (A/swine/Pennsylvania/62170-4/2010(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3808 3808 100% 0.0 97%
HM461760.1 Influenza A virus (A/swine/Minnesota/02053/2008(H1N1)) segment 2 polymerase PB1 (PB1) gene, partial cds 3808 3808 100% 0.0 97%
GQ457567.1 Influenza A virus (A/Saskatchewan/5351/2009(H1N1)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3808 3808 100% 0.0 97%
EU399757.1 Influenza A virus (A/Ontario/1252/2007(H3N2)) polymerase subunit PB1 (PB1) gene, complete cds 3808 3808 100% 0.0 97%
HQ825233.1 Influenza A virus (A/swine/QC/1840-2/2009(H3N2)) segment 2 polymerase PB1 (PB1) and PB1-F2 protein (PB1-F2) genes, complete cds 3802 3802 100% 0.0 97%
CY035428.1 Influenza A virus (A/swine/Minnesota/SG-00238/2006(H1N1)) segment 2 sequence 3802 3802 99% 0.0 97%

The Ohio trH1N1 and trH1N2 sequences above complete the 2011 pandemic puzzle of H3N2pdm11 creation.

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niman
PostPosted: Wed Dec 07, 2011 4:51 am 
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Commentary

http://www.recombinomics.com/News/12071 ... uzzle.html

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PostPosted: Wed Dec 07, 2011 7:07 am 
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Ohio sequences released again at Genbank

Swine 1 H1N2 USA 2010/10/01 2277 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2))
HQ833564 Swine 2 H1N2 USA 2010/10/01 2271 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2))
HQ833565 Swine 3 H1N2 USA 2010/10/01 2148 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2))
HQ833566 Swine 4 H1N2 USA 2010/10/01 1695 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) yes
HQ833567 Swine 5 H1N2 USA 2010/10/01 1494 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) yes
HQ833568 Swine 6 H1N2 USA 2010/10/01 1407 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) yes
HQ833569 Swine 7 H1N2 USA 2010/10/01 990 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) yes
HQ833570 Swine 8 H1N2 USA 2010/10/01 864 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) yes
ftp://ftp.ncbi.nih.gov/genomes/INFLUENZ ... nza_na.dat

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PostPosted: Wed Dec 07, 2011 7:12 am 
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niman wrote:
Ohio sequences released again at Genbank

Swine 1 H1N2 USA 2010/10/01 2277 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2))
HQ833564 Swine 2 H1N2 USA 2010/10/01 2271 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2))
HQ833565 Swine 3 H1N2 USA 2010/10/01 2148 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2))
HQ833566 Swine 4 H1N2 USA 2010/10/01 1695 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) yes
HQ833567 Swine 5 H1N2 USA 2010/10/01 1494 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) yes
HQ833568 Swine 6 H1N2 USA 2010/10/01 1407 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) yes
HQ833569 Swine 7 H1N2 USA 2010/10/01 990 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) yes
HQ833570 Swine 8 H1N2 USA 2010/10/01 864 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) yes
ftp://ftp.ncbi.nih.gov/genomes/INFLUENZ ... nza_na.dat

Initially released Dec 3
ftp://ftp.ncbi.nih.gov/genomes/INFLUENZ ... nza_na.dat

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niman
PostPosted: Wed Dec 07, 2011 7:17 am 
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niman wrote:
niman wrote:
Ohio sequences released again at Genbank

Swine 1 H1N2 USA 2010/10/01 2277 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2))
HQ833564 Swine 2 H1N2 USA 2010/10/01 2271 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2))
HQ833565 Swine 3 H1N2 USA 2010/10/01 2148 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2))
HQ833566 Swine 4 H1N2 USA 2010/10/01 1695 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) yes
HQ833567 Swine 5 H1N2 USA 2010/10/01 1494 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) yes
HQ833568 Swine 6 H1N2 USA 2010/10/01 1407 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) yes
HQ833569 Swine 7 H1N2 USA 2010/10/01 990 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) yes
HQ833570 Swine 8 H1N2 USA 2010/10/01 864 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) yes
ftp://ftp.ncbi.nih.gov/genomes/INFLUENZ ... nza_na.dat

Initially released Dec 3
ftp://ftp.ncbi.nih.gov/genomes/INFLUENZ ... nza_na.dat

I double checked PB1, NA, and MP sequences which are the same (and accession number pulls up sheet dated Dec 1).

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PostPosted: Thu Dec 08, 2011 1:44 pm 
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Match Ohio in HA, NA, MP

HQ833566.1 Influenza A virus (A/swine/Ohio/FAH10-1/2010(H1N2)) segment 4 hemagglutinin (HA) gene, partial cds 3131 3131 100% 0.0 100%
CY078421.1 Influenza A virus (A/swine/South Dakota/2/2010(H1N2)) segment 4 sequence 3103 3103 99% 0.0 99%
CY078424.1 Influenza A virus (A/swine/South Dakota/3/2010(H1N2)) segment 4 sequence 3097 3097 99% 0.0 99%
JN652499.1 Influenza A virus (A/swine/Iowa/A01049846/2011(H1N2)) segment 4 hemagglutinin (HA) gene, complete cds 3092 3092 100% 0.0 99%
JN652420.1 Influenza A virus (A/swine/Iowa/A01049722/2011(H1N2)) segment 4 hemagglutinin (HA) gene, complete cds 3086 3086 100% 0.0 99%
JN652421.1 Influenza A virus (A/swine/Iowa/A01049723/2011(H1N2)) segment 4 hemagglutinin (HA) gene, complete cds
JN652422.1 Influenza A virus (A/swine/Iowa/A01049724/2011(H1N2)) segment 4 hemagglutinin (HA) gene, complete cds
JN652423.1 Influenza A virus (A/swine/Iowa/A01049728/2011(H1N2)) segment 4 hemagglutinin (HA) gene, complete cds 3086 3086 100% 0.0 99%
JN652516.1 Influenza A virus (A/swine/Indiana/A01049953/2011(H1N2)) segment 4 hemagglutinin (HA) gene, complete cds 3086 3086 100% 0.0 99%
JN652498.1 Influenza A virus (A/swine/Indiana/A01049794/2011(H1N2)) segment 4 hemagglutinin (HA) gene, complete cds 3083 3083 100% 0.0 99%
JN162060.1 Influenza A virus (A/swine/Iowa/A01049450/2011(H1N2)) segment 4 hemagglutinin (HA) gene, complete cds
JN652418.1 Influenza A virus (A/swine/Iowa/A01049718/2011(H1N2)) segment 4 hemagglutinin (HA) gene, complete cds 3081 3081 100% 0.0 99%
JN652503.1 Influenza A virus (A/swine/Iowa/A01049887/2011(H1N2)) segment 4 hemagglutinin (HA) gene, complete cds 3059 3059 100% 0.0 99%
JN652413.1 Influenza A virus (A/swine/Iowa/A01049646/2011(H1N2)) segment 4 hemagglutinin (HA) gene, complete cds 3053 3053 100% 0.0 99%
JN652514.1 Influenza A virus (A/swine/Iowa/A01049951/2011(H1N2)) segment 4 hemagglutinin (HA) gene, complete cds 3048 3048 100% 0.0 99%
CY081566.1 Influenza A virus (A/swine/South Dakota/4/2010(H1N2)) hemagglutinin (HA) gene, partial cds 3048 3048 99% 0.0 99%
JN652518.1 Influenza A virus (A/swine/Indiana/A01049964/2011(H1N2)) segment 4 hemagglutinin (HA) gene, complete cds 3042 3042 100% 0.0 99%
CY099367.1 Influenza A virus (A/swine/Illinois/A00907647/2011(H1N2)) hemagglutinin (HA) gene, complete cds 3037 3037 100% 0.0 99%
JN652517.1 Influenza A virus (A/swine/Minnesota/A01049956/2011(H1N2)) segment 4 hemagglutinin (HA) gene, complete cds 3031 3031 100% 0.0 99%
JF812285.1 Influenza A virus (A/swine/Iowa/A01049071/2010(H1N2)) segment 4 hemagglutinin (HA) gene, complete cds 3025 3025 100% 0.0 99%
JN652502.1 Influenza A virus (A/swine/Iillinois/A01049872/2011(H1N2)) segment 4 hemagglutinin (HA) gene, complete cds 3020 3020 100% 0.0 99%
JN652501.1 Influenza A virus (A/swine/Iillinois/A01049871/2011(H1N2)) segment 4 hemagglutinin (HA) gene, complete cds 3014 3014 100% 0.0 99%

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