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niman
PostPosted: Thu Nov 03, 2011 5:54 pm 
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Joined: Wed Aug 19, 2009 10:42 am
Posts: 27558
Location: Pittsburgh, PA USA
niman wrote:
niman wrote:
The Indiana State Department of Health Laboratory identified a suspect swine-origin influenza A virus on
October 28, 2011. The specimen was forwarded to the CDC where genome sequencing confirmed the specimen
to be positive for the presence of a triple reassortant H3N2 (SOtrH3N2) influenza virus. The case has been
investigated by ISDH Surveillance and Investigations Division, the Indiana State Department of Health
Laboratory, and the CDC. The affected Local Health Department and BOAH have been notified and have been
cooperative in the investigation. The case patient had very close contact with pigs in the week prior to illness
onset. No illness has been reported in the case’s household or close contacts. This case is the 7th recognized
case of human infection with S-OtrH3N2 with the M segment gene from the pH1N1virus (previously identified in
Maine [2], Indiana [1], and Pennsylvania [3]) in 2011. This case from Indiana marks the second case in the past 3
months and the 15th human case of S-OtrH3N2 reported to CDC since 2005. No community transmission has
been documented in this case. General information about swine influenza is available at
http://www.cdc.gov/flu/swineflu/.

http://www.in.gov/isdh/files/Week43-2011.pdf

The week 43 report that acknowledges the novel trH3N2 case (which is novel and reportable to WHO under International Health Regulations) states

Currently, all influenza viruses circulating are not a, “novel” or new virus to humans

The bizarre agency reports continue!!!!!!!!

Multiple calls into ISDH Surveillance and Investigation Division yesterday and today not returned. I was told that I would get a call, which never happened.

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niman
PostPosted: Thu Nov 03, 2011 6:47 pm 
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Joined: Wed Aug 19, 2009 10:42 am
Posts: 27558
Location: Pittsburgh, PA USA
Commentary

http://www.recombinomics.com/News/11031 ... enial.html

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niman
PostPosted: Thu Nov 03, 2011 7:26 pm 
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Joined: Wed Aug 19, 2009 10:42 am
Posts: 27558
Location: Pittsburgh, PA USA
niman wrote:
niman wrote:
The Indiana State Department of Health Laboratory identified a suspect swine-origin influenza A virus on
October 28, 2011.

ƾ The Indiana State Department of Health Laboratory identified a suspect swine-origin influenza A virus on
October 28, 2011. The specimen was forwarded to the CDC where genome sequencing confirmed the specimen
to be positive for the presence of a triple reassortant H3N2 (SOtrH3N2) influenza virus.

Note that ISDH uses SOtrH3N2 to create the illusion that the SO (Swine Origin) indicates all case arose from swine, but their first case (2M - A/Indiana/08/2011) had NO swine contact.

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niman
PostPosted: Fri Nov 04, 2011 12:35 pm 
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Joined: Wed Aug 19, 2009 10:42 am
Posts: 27558
Location: Pittsburgh, PA USA
CDC has changed the name of A/Indiana/11/2011 to A/Indiana/10/2011 !!!!

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niman
PostPosted: Fri Nov 04, 2011 12:42 pm 
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Joined: Wed Aug 19, 2009 10:42 am
Posts: 27558
Location: Pittsburgh, PA USA
niman wrote:
niman wrote:
niman wrote:
CDC has released new trH3N2 sequences (at GISAID) from Indiana (A/Indiana/11/2011) and Maine (A/Maine/07/2011) at GISAID with M gene from H1N1pdm09.

Indiana case is 59M collected Sept 22.

Top 100 HA matches
EPI340984 A/Indiana/11/2011 (A/H3N2) segment 4 (HA) 3142.3 0.000000e+00 1701/1701 (100%)
EPI339171 A/Maine/06/2011 (A/H3N2) segment 4 (HA) 3114.6 0.000000e+00 1696/1701 (99%)
EPI317003 A/swine/Indiana/A0109091/2010 (A/H3N2) segment 4 (HA) 3109.0 0.000000e+00 1695/1701 (99%)
EPI324857 A/swine/North Carolina/A01049436/2011 (A/H3N2) segment 4 (HA) 3098.0 0.000000e+00 1693/1701 (99%)
EPI293965 A/Minnesota/11/2010 (A/H3N2) segment 4 (HA) 3092.4 0.000000e+00 1692/1701 (99%)
EPI338561 A/swine/Indiana/A01049745/2011 (A/H3N2) segment 4 (HA) 3088.7 0.000000e+00 1691/1701 (99%)
EPI338562 A/swine/Indiana/A01049744/2011 (A/H3N2) segment 4 (HA) 3086.9 0.000000e+00 1691/1701 (99%)
EPI328900 A/Minnesota/11/2010 X-203A (A/H3N2) segment 4 (HA) 3086.9 0.000000e+00 1691/1701 (99%)
EPI291898 A/Wisconsin/12/2010 (A/H3N2) segment 4 (HA) 3086.9 0.000000e+00 1691/1701 (99%)
EPI338421 A/swine/Indiana/A01049653/2011 (A/H3N2) segment 4 (HA) 3081.3 0.000000e+00 1690/1701 (99%)
EPI328898 A/Minnesota/11/2010 X-203 (A/H3N2) segment 4 (HA) 3081.3 0.000000e+00 1690/1701 (99%)
EPI312980 A/Pennsylvania/40/2010 (A/H3N2) segment 4 (HA) 3081.3 0.000000e+00 1690/1701 (99%)
EPI333152 A/Indiana/08/2011 (A/H3N2) segment 4 (HA) 3064.7 0.000000e+00 1687/1701 (99%)
EPI335610 A/Pennsylvania/09/2011 (A/H3N2) segment 4 (HA) 3061.0 0.000000e+00 1686/1701 (99%)
EPI291838 A/Minnesota/09/2010 (A/H3N2) segment 4 (HA) 3007.5 0.000000e+00 1660/1676 (99%)
EPI291893 A/Wisconsin/12/2010 (A/H3N2) segment 4 (HA) 2933.6 0.000000e+00 1608/1618 (99%)
EPI222910 A/swine/Minnesota/7931/2007 (A/H3N2) segment 4 (HA) 2893.0 0.000000e+00 1658/1703 (97%)
EPI337441 A/swine/Minnesota/00611/2005 (A/H3N2) segment 4 (HA) 2881.9 0.000000e+00 1655/1702 (97%)
EPI314335 A/turkey/BC/1529-3/2005 (A/H3N2) segment 4 (HA) 2865.3 0.000000e+00 1653/1703 (97%)
EPI103199 A/swine/Ontario/33853/2005 (A/H3N2) segment 4 (HA) 2865.3 0.000000e+00 1653/1703 (97%)
EPI103127 A/Ontario/RV1273/2005 (A/H3N2) segment 4 (HA) 2865.3 0.000000e+00 1653/1703 (97%)
EPI229372 A/turkey/OH/313053/2004 (A/H3N2) segment 4 (HA) 2859.7 0.000000e+00 1652/1703 (97%)
EPI103181 A/swine/Manitoba/12707/2005 (A/H3N2) segment 4 (HA) 2854.2 0.000000e+00 1651/1703 (96%)
EPI103145 A/swine/Alberta/14722/2005 (A/H3N2) segment 4 (HA) 2854.2 0.000000e+00 1651/1703 (96%)
EPI101389 A/turkey/Ohio/313053/04 (A/H3N2) segment 4 (HA) 2854.2 0.000000e+00 1651/1703 (96%)
EPI289638 A/swine/Minnesota/1300/2007 (A/H3N2) segment 4 (HA) 2843.1 0.000000e+00 1649/1703 (96%)
EPI158876 A/turkey/MN/366767/2005 (A/H3N2) segment 4 (HA) 2843.1 0.000000e+00 1649/1703 (96%)
EPI337384 A/swine/Nebraska/00722/2005 (A/H0) segment 4 (HA) 2832.0 0.000000e+00 1647/1703 (96%)
EPI228922 A/turkey/Illinois/2004 (A/H3N2) segment 4 (HA) 2826.5 0.000000e+00 1647/1704 (96%)
EPI168645 A/turkey/Minnesota/366767/2005 (A/H3N2) segment 4 (HA) 2826.5 0.000000e+00 1647/1704 (96%)
EPI103217 A/turkey/Ontario/31232/2005 (A/H3N2) segment 4 (HA) 2826.5 0.000000e+00 1647/1704 (96%)
EPI337545 A/swine/Minnesota/00484/2005 (A/H3N2) segment 4 (HA) 2821.0 0.000000e+00 1645/1703 (96%)
EPI337349 A/swine/Minnesota/01146/2006 (A/H3N2) segment 4 (HA) 2815.4 0.000000e+00 1644/1703 (96%)
EPI227574 A/turkey/NC/353568/2005 (A/H3N2) segment 4 (HA) 2815.4 0.000000e+00 1644/1703 (96%)
EPI168650 A/turkey/North Carolina/353568/2005 (A/H3N2) segment 4 (HA) 2815.4 0.000000e+00 1644/1703 (96%)
EPI337401 A/swine/Minnesota/02782/2009 (A/H3N2) segment 4 (HA) 2809.9 0.000000e+00 1644/1704 (96%)
EPI166252 A/swine/Minnesota/SG-00234/2005 (A/H3N2) segment 4 (HA) 2808.0 0.000000e+00 1635/1691 (96%)
EPI337529 A/swine/Minnesota/001332/2006 (A/H3N2) segment 4 (HA) 2804.3 0.000000e+00 1643/1704 (96%)
EPI225756 A/swine/Minnesota/66853/2006 (A/H3N2) segment 4 (HA) 2804.3 0.000000e+00 1642/1703 (96%)
EPI128344 A/Ontario/1252/2007 (A/H3N2) segment 4 (HA) 2804.3 0.000000e+00 1642/1703 (96%)
EPI98712 A/swine/MI/PU243/04 (A/H3N1) segment 4 (HA) 2800.6 0.000000e+00 1640/1702 (96%)
EPI337409 A/swine/Minnesota/01862/2007 (A/H3N2) segment 4 (HA) 2798.8 0.000000e+00 1642/1704 (96%)
EPI182817 A/swine/Quebec/4001/2005 (A/H3N2) segment 4 (HA) 2798.8 0.000000e+00 1641/1703 (96%)
EPI222756 A/swine/Minnesota/1145/2007 (A/H3N2) segment 4 (HA) 2793.3 0.000000e+00 1640/1703 (96%)
EPI166255 A/swine/Minnesota/SG-00235/2007 (A/H3N2) segment 4 (HA) 2791.4 0.000000e+00 1632/1691 (96%)
EPI166258 A/swine/Minnesota/SG-00236/2007 (A/H3N2) segment 4 (HA) 2789.6 0.000000e+00 1631/1690 (96%)
EPI225758 A/swine/Minnesota/66960/2006 (A/H3N2) segment 4 (HA) 2787.7 0.000000e+00 1639/1703 (96%)
EPI222674 A/swine/Oklahoma/008722/2007 (A/H3N2) segment 4 (HA) 2787.7 0.000000e+00 1639/1703 (96%)
EPI184448 A/swine/North Carolina/R08-001877-D08-013371/2008 (A/H3N2) segment 4 (HA) 2787.7 0.000000e+00 1640/1704 (96%)
EPI103163 A/swine/British Columbia/28103/2005 (A/H3N2) segment 4 (HA) 2787.7 0.000000e+00 1640/1704 (96%)
EPI314635 A/swine/QC/2108-2/2009 (A/H3N2) segment 4 (HA) 2782.2 0.000000e+00 1638/1703 (96%)
EPI225753 A/swine/Minnesota/65767/2006 (A/H3N2) segment 4 (HA) 2782.2 0.000000e+00 1638/1703 (96%)
EPI222959 A/swine/Minnesota/578/2007 (A/H3N2) segment 4 (HA) 2782.2 0.000000e+00 1639/1704 (96%)
EPI222657 A/swine/Minnesota/5947/2007 (A/H3N2) segment 4 (HA) 2776.6 0.000000e+00 1637/1703 (96%)
EPI166278 A/swine/Minnesota/SG-00242/2006 (A/H3N2) segment 4 (HA) 2776.6 0.000000e+00 1631/1694 (96%)
EPI222961 A/swine/Minnesota/761/2007 (A/H3N2) segment 4 (HA) 2771.1 0.000000e+00 1637/1704 (96%)
EPI314679 A/swine/QC/414/2009 (A/H3N2) segment 4 (HA) 2767.4 0.000000e+00 1637/1704 (96%)
EPI314666 A/swine/QC/1698-2/2009 (A/H3N2) segment 4 (HA) 2765.6 0.000000e+00 1636/1704 (96%)
EPI314665 A/swine/QC/1698-1/2009 (A/H3N2) segment 4 (HA) 2765.6 0.000000e+00 1636/1704 (96%)
EPI312689 A/swine/Minnesota/239105/2009 (A/H3N2) segment 4 (HA) 2765.6 0.000000e+00 1633/1701 (96%)
EPI314667 A/swine/QC/1698-4/2009 (A/H3N2) segment 4 (HA) 2760.0 0.000000e+00 1635/1704 (95%)
EPI309154 A/swine/Pennsylvania/62170-3/2010 (A/H3N2) segment 4 (HA) 2760.0 0.000000e+00 1633/1702 (95%)
EPI309153 A/swine/Pennsylvania/62170-1/2010 (A/H3N2) segment 4 (HA) 2760.0 0.000000e+00 1633/1702 (95%)
EPI314668 A/swine/QC/1698-5/2009 (A/H3N2) segment 4 (HA) 2754.5 0.000000e+00 1634/1704 (95%)
EPI314643 A/swine/QC/382/2009 (A/H3N2) segment 4 (HA) 2754.5 0.000000e+00 1633/1703 (95%)
EPI259504 A/swine/Minnesota/03008/2010 (A/H3N2) segment 4 (HA) 2754.5 0.000000e+00 1635/1705 (95%)
EPI182824 A/mink/Nova Scotia/1055488/2007 (A/H3N2) segment 4 (HA) 2754.5 0.000000e+00 1634/1704 (95%)
EPI317007 A/swine/Iowa/A0109112/2010 (A/H3N2) segment 4 (HA) 2748.9 0.000000e+00 1634/1705 (95%)
EPI291872 A/Pennsylvania/14/2010 (A/H3N2) segment 4 (HA) 2748.9 0.000000e+00 1632/1703 (95%)
EPI291870 A/Pennsylvania/14/2010 (A/H3N2) segment 4 (HA) 2748.9 0.000000e+00 1632/1703 (95%)
EPI291865 A/Pennsylvania/14/2010 (A/H3N2) segment 4 (HA) 2748.9 0.000000e+00 1632/1703 (95%)
EPI222682 A/swine/Oklahoma/011506/2007 (A/H3N2) segment 4 (HA) 2748.9 0.000000e+00 1633/1704 (95%)
EPI338542 A/swine/Nebraska/A01049937/2011 (A/H3N2) segment 4 (HA) 2743.4 0.000000e+00 1633/1705 (95%)
EPI318095 A/swine/Iowa/A01049113/2010 (A/H3N2) segment 4 (HA) 2743.4 0.000000e+00 1633/1705 (95%)
EPI314687 A/swine/QC/1840-2/2009 (A/H3N2) segment 4 (HA) 2739.7 0.000000e+00 1629/1701 (95%)
EPI324849 A/swine/Iowa/A01049254/2010 (A/H3N2) segment 4 (HA) 2737.9 0.000000e+00 1631/1704 (95%)
EPI324844 A/swine/Nebraska/A01049235/2010 (A/H3N2) segment 4 (HA) 2737.9 0.000000e+00 1632/1705 (95%)
EPI316991 A/swine/Iowa/A0109035/2010 (A/H3N2) segment 4 (HA) 2737.9 0.000000e+00 1628/1701 (95%)
EPI316990 A/swine/Iowa/A0109034/2010 (A/H3N2) segment 4 (HA) 2737.9 0.000000e+00 1628/1701 (95%)
EPI314796 A/swine/Pennsylvania/602170-4/2010 (A/H3N2) segment 4 (HA) 2737.9 0.000000e+00 1629/1702 (95%)
EPI336800 A/swine/Quebec/1257777/2010 (A/H3N2) segment 4 (HA) 2732.3 0.000000e+00 1624/1695 (95%)
EPI318106 A/swine/Iowa/A01049185/2010 (A/H3N2) segment 4 (HA) 2732.3 0.000000e+00 1630/1704 (95%)
EPI324851 A/swine/Iowa/A01049317/2010 (A/H3N2) segment 4 (HA) 2726.8 0.000000e+00 1629/1704 (95%)
EPI314663 A/swine/QC/1685-1/2009 (A/H3N2) segment 4 (HA) 2726.8 0.000000e+00 1628/1703 (95%)
EPI307943 A/swine/Iowa/A01057188/2010 (A/H3N2) segment 4 (HA) 2726.8 0.000000e+00 1629/1704 (95%)
EPI302647 A/swine/Illinois/53612-2/2009 (A/H3N2) segment 4 (HA) 2721.2 0.000000e+00 1628/1704 (95%)
EPI302646 A/swine/Illinois/53612-1/2009 (A/H3N2) segment 4 (HA) 2721.2 0.000000e+00 1628/1704 (95%)
EPI244297 A/Kansas/13/2009 (A/H3N2) segment 4 (HA) 2721.2 0.000000e+00 1628/1704 (95%)
EPI25393 A/turkey/ Minnesota/764-2/03 (A/H3N2) segment 4 (HA) 2721.2 0.000000e+00 1629/1705 (95%)
EPI338543 A/swine/Minnesota/A01049936/2011 (A/H3N2) segment 4 (HA) 2715.7 0.000000e+00 1627/1704 (95%)
EPI314664 A/swine/QC/1685-5/2009 (A/H3N2) segment 4 (HA) 2715.7 0.000000e+00 1626/1703 (95%)
EPI230035 A/swine/Wisconsin/R7c/2001 (A/H3N2) segment 4 (HA) 2715.7 0.000000e+00 1627/1704 (95%)
EPI25391 A/turkey/North Carolina/12344/03 (A/H3N2) segment 4 (HA) 2715.7 0.000000e+00 1628/1705 (95%)
EPI314795 A/swine/Pennsylvania/602170-2/2010 (A/H3N2) segment 4 (HA) 2710.2 0.000000e+00 1624/1702 (95%)
EPI219360 A/swine/Kansas/015252/2009 (A/H3N2) segment 4 (HA) 2710.2 0.000000e+00 1625/1703 (95%)
EPI314695 A/swine/QC/440-A/2009 (A/H3N2) segment 4 (HA) 2700.9 0.000000e+00 1626/1706 (95%)
EPI302658 A/swine/Illinois/53612-5/2009 (A/H3N2) segment 4 (HA) 2699.1 0.000000e+00 1625/1705 (95%)
EPI302653 A/swine/Illinois/53612-4/2009 (A/H3N2) segment 4 (HA) 2693.5 0.000000e+00 1624/1705 (95%)
EPI292016 A/swine/Iowa/H03BF5/2003 (A/H3N2) segment 4 (HA) 2689.8 0.000000e+00 1624/1706 (95%)
EPI314515 A/quail/QC/FAV-10/2008 (A/H3N2) segment 4 (HA) 2688.0 0.000000e+00 1620/1702 (95%)

EPI340984 A/Indiana/10/2011 (A/H3N2) segment 4 (HA) 3142.3 0.000000e+00 1701/1701 (100%)
EPI339171 A/Maine/06/2011 (A/H3N2) segment 4 (HA) 3114.6 0.000000e+00 1696/1701 (99%)
EPI317003 A/swine/Indiana/A0109091/2010 (A/H3N2) segment 4 (HA) 3109.0 0.000000e+00 1695/1701 (99%)
EPI324857 A/swine/North Carolina/A01049436/2011 (A/H3N2) segment 4 (HA) 3098.0 0.000000e+00 1693/1701 (99%)
EPI293965 A/Minnesota/11/2010 (A/H3N2) segment 4 (HA) 3092.4 0.000000e+00 1692/1701 (99%)
EPI338561 A/swine/Indiana/A01049745/2011 (A/H3N2) segment 4 (HA) 3088.7 0.000000e+00 1691/1701 (99%)
EPI338562 A/swine/Indiana/A01049744/2011 (A/H3N2) segment 4 (HA) 3086.9 0.000000e+00 1691/1701 (99%)
EPI328900 A/Minnesota/11/2010 X-203A (A/H3N2) segment 4 (HA) 3086.9 0.000000e+00 1691/1701 (99%)
EPI291898 A/Wisconsin/12/2010 (A/H3N2) segment 4 (HA) 3086.9 0.000000e+00 1691/1701 (99%)
EPI338421 A/swine/Indiana/A01049653/2011 (A/H3N2) segment 4 (HA) 3081.3 0.000000e+00 1690/1701 (99%)
EPI328898 A/Minnesota/11/2010 X-203 (A/H3N2) segment 4 (HA) 3081.3 0.000000e+00 1690/1701 (99%)
EPI312980 A/Pennsylvania/40/2010 (A/H3N2) segment 4 (HA) 3081.3 0.000000e+00 1690/1701 (99%)
EPI333152 A/Indiana/08/2011 (A/H3N2) segment 4 (HA) 3064.7 0.000000e+00 1687/1701 (99%)
EPI335610 A/Pennsylvania/09/2011 (A/H3N2) segment 4 (HA) 3061.0 0.000000e+00 1686/1701 (99%)
EPI291838 A/Minnesota/09/2010 (A/H3N2) segment 4 (HA) 3007.5 0.000000e+00 1660/1676 (99%)
EPI291893 A/Wisconsin/12/2010 (A/H3N2) segment 4 (HA) 2933.6 0.000000e+00 1608/1618 (99%)
EPI222910 A/swine/Minnesota/7931/2007 (A/H3N2) segment 4 (HA) 2893.0 0.000000e+00 1658/1703 (97%)
EPI337441 A/swine/Minnesota/00611/2005 (A/H3N2) segment 4 (HA) 2881.9 0.000000e+00 1655/1702 (97%)
EPI314335 A/turkey/BC/1529-3/2005 (A/H3N2) segment 4 (HA) 2865.3 0.000000e+00 1653/1703 (97%)
EPI103199 A/swine/Ontario/33853/2005 (A/H3N2) segment 4 (HA) 2865.3 0.000000e+00 1653/1703 (97%)
EPI103127 A/Ontario/RV1273/2005 (A/H3N2) segment 4 (HA) 2865.3 0.000000e+00 1653/1703 (97%)
EPI229372 A/turkey/OH/313053/2004 (A/H3N2) segment 4 (HA) 2859.7 0.000000e+00 1652/1703 (97%)
EPI103181 A/swine/Manitoba/12707/2005 (A/H3N2) segment 4 (HA) 2854.2 0.000000e+00 1651/1703 (96%)
EPI103145 A/swine/Alberta/14722/2005 (A/H3N2) segment 4 (HA) 2854.2 0.000000e+00 1651/1703 (96%)
EPI101389 A/turkey/Ohio/313053/04 (A/H3N2) segment 4 (HA) 2854.2 0.000000e+00 1651/1703 (96%)
EPI289638 A/swine/Minnesota/1300/2007 (A/H3N2) segment 4 (HA) 2843.1 0.000000e+00 1649/1703 (96%)
EPI158876 A/turkey/MN/366767/2005 (A/H3N2) segment 4 (HA) 2843.1 0.000000e+00 1649/1703 (96%)
EPI337384 A/swine/Nebraska/00722/2005 (A/H0) segment 4 (HA) 2832.0 0.000000e+00 1647/1703 (96%)
EPI228922 A/turkey/Illinois/2004 (A/H3N2) segment 4 (HA) 2826.5 0.000000e+00 1647/1704 (96%)
EPI168645 A/turkey/Minnesota/366767/2005 (A/H3N2) segment 4 (HA) 2826.5 0.000000e+00 1647/1704 (96%)
EPI103217 A/turkey/Ontario/31232/2005 (A/H3N2) segment 4 (HA) 2826.5 0.000000e+00 1647/1704 (96%)
EPI337545 A/swine/Minnesota/00484/2005 (A/H3N2) segment 4 (HA) 2821.0 0.000000e+00 1645/1703 (96%)
EPI337349 A/swine/Minnesota/01146/2006 (A/H3N2) segment 4 (HA) 2815.4 0.000000e+00 1644/1703 (96%)
EPI227574 A/turkey/NC/353568/2005 (A/H3N2) segment 4 (HA) 2815.4 0.000000e+00 1644/1703 (96%)
EPI168650 A/turkey/North Carolina/353568/2005 (A/H3N2) segment 4 (HA) 2815.4 0.000000e+00 1644/1703 (96%)
EPI337401 A/swine/Minnesota/02782/2009 (A/H3N2) segment 4 (HA) 2809.9 0.000000e+00 1644/1704 (96%)
EPI166252 A/swine/Minnesota/SG-00234/2005 (A/H3N2) segment 4 (HA) 2808.0 0.000000e+00 1635/1691 (96%)
EPI337529 A/swine/Minnesota/001332/2006 (A/H3N2) segment 4 (HA) 2804.3 0.000000e+00 1643/1704 (96%)
EPI225756 A/swine/Minnesota/66853/2006 (A/H3N2) segment 4 (HA) 2804.3 0.000000e+00 1642/1703 (96%)
EPI128344 A/Ontario/1252/2007 (A/H3N2) segment 4 (HA) 2804.3 0.000000e+00 1642/1703 (96%)
EPI98712 A/swine/MI/PU243/04 (A/H3N1) segment 4 (HA) 2800.6 0.000000e+00 1640/1702 (96%)
EPI337409 A/swine/Minnesota/01862/2007 (A/H3N2) segment 4 (HA) 2798.8 0.000000e+00 1642/1704 (96%)
EPI182817 A/swine/Quebec/4001/2005 (A/H3N2) segment 4 (HA) 2798.8 0.000000e+00 1641/1703 (96%)
EPI222756 A/swine/Minnesota/1145/2007 (A/H3N2) segment 4 (HA) 2793.3 0.000000e+00 1640/1703 (96%)
EPI166255 A/swine/Minnesota/SG-00235/2007 (A/H3N2) segment 4 (HA) 2791.4 0.000000e+00 1632/1691 (96%)
EPI166258 A/swine/Minnesota/SG-00236/2007 (A/H3N2) segment 4 (HA) 2789.6 0.000000e+00 1631/1690 (96%)
EPI225758 A/swine/Minnesota/66960/2006 (A/H3N2) segment 4 (HA) 2787.7 0.000000e+00 1639/1703 (96%)
EPI222674 A/swine/Oklahoma/008722/2007 (A/H3N2) segment 4 (HA) 2787.7 0.000000e+00 1639/1703 (96%)
EPI184448 A/swine/North Carolina/R08-001877-D08-013371/2008 (A/H3N2) segment 4 (HA) 2787.7 0.000000e+00 1640/1704 (96%)
EPI103163 A/swine/British Columbia/28103/2005 (A/H3N2) segment 4 (HA) 2787.7 0.000000e+00 1640/1704 (96%)
EPI314635 A/swine/QC/2108-2/2009 (A/H3N2) segment 4 (HA) 2782.2 0.000000e+00 1638/1703 (96%)
EPI225753 A/swine/Minnesota/65767/2006 (A/H3N2) segment 4 (HA) 2782.2 0.000000e+00 1638/1703 (96%)
EPI222959 A/swine/Minnesota/578/2007 (A/H3N2) segment 4 (HA) 2782.2 0.000000e+00 1639/1704 (96%)
EPI222657 A/swine/Minnesota/5947/2007 (A/H3N2) segment 4 (HA) 2776.6 0.000000e+00 1637/1703 (96%)
EPI166278 A/swine/Minnesota/SG-00242/2006 (A/H3N2) segment 4 (HA) 2776.6 0.000000e+00 1631/1694 (96%)
EPI222961 A/swine/Minnesota/761/2007 (A/H3N2) segment 4 (HA) 2771.1 0.000000e+00 1637/1704 (96%)
EPI314679 A/swine/QC/414/2009 (A/H3N2) segment 4 (HA) 2767.4 0.000000e+00 1637/1704 (96%)
EPI314666 A/swine/QC/1698-2/2009 (A/H3N2) segment 4 (HA) 2765.6 0.000000e+00 1636/1704 (96%)
EPI314665 A/swine/QC/1698-1/2009 (A/H3N2) segment 4 (HA) 2765.6 0.000000e+00 1636/1704 (96%)
EPI312689 A/swine/Minnesota/239105/2009 (A/H3N2) segment 4 (HA) 2765.6 0.000000e+00 1633/1701 (96%)
EPI314667 A/swine/QC/1698-4/2009 (A/H3N2) segment 4 (HA) 2760.0 0.000000e+00 1635/1704 (95%)
EPI309154 A/swine/Pennsylvania/62170-3/2010 (A/H3N2) segment 4 (HA) 2760.0 0.000000e+00 1633/1702 (95%)
EPI309153 A/swine/Pennsylvania/62170-1/2010 (A/H3N2) segment 4 (HA) 2760.0 0.000000e+00 1633/1702 (95%)
EPI314668 A/swine/QC/1698-5/2009 (A/H3N2) segment 4 (HA) 2754.5 0.000000e+00 1634/1704 (95%)
EPI314643 A/swine/QC/382/2009 (A/H3N2) segment 4 (HA) 2754.5 0.000000e+00 1633/1703 (95%)
EPI259504 A/swine/Minnesota/03008/2010 (A/H3N2) segment 4 (HA) 2754.5 0.000000e+00 1635/1705 (95%)
EPI182824 A/mink/Nova Scotia/1055488/2007 (A/H3N2) segment 4 (HA) 2754.5 0.000000e+00 1634/1704 (95%)
EPI317007 A/swine/Iowa/A0109112/2010 (A/H3N2) segment 4 (HA) 2748.9 0.000000e+00 1634/1705 (95%)
EPI291872 A/Pennsylvania/14/2010 (A/H3N2) segment 4 (HA) 2748.9 0.000000e+00 1632/1703 (95%)
EPI291870 A/Pennsylvania/14/2010 (A/H3N2) segment 4 (HA) 2748.9 0.000000e+00 1632/1703 (95%)
EPI291865 A/Pennsylvania/14/2010 (A/H3N2) segment 4 (HA) 2748.9 0.000000e+00 1632/1703 (95%)
EPI222682 A/swine/Oklahoma/011506/2007 (A/H3N2) segment 4 (HA) 2748.9 0.000000e+00 1633/1704 (95%)
EPI338542 A/swine/Nebraska/A01049937/2011 (A/H3N2) segment 4 (HA) 2743.4 0.000000e+00 1633/1705 (95%)
EPI318095 A/swine/Iowa/A01049113/2010 (A/H3N2) segment 4 (HA) 2743.4 0.000000e+00 1633/1705 (95%)
EPI314687 A/swine/QC/1840-2/2009 (A/H3N2) segment 4 (HA) 2739.7 0.000000e+00 1629/1701 (95%)
EPI324849 A/swine/Iowa/A01049254/2010 (A/H3N2) segment 4 (HA) 2737.9 0.000000e+00 1631/1704 (95%)
EPI324844 A/swine/Nebraska/A01049235/2010 (A/H3N2) segment 4 (HA) 2737.9 0.000000e+00 1632/1705 (95%)
EPI316991 A/swine/Iowa/A0109035/2010 (A/H3N2) segment 4 (HA) 2737.9 0.000000e+00 1628/1701 (95%)
EPI316990 A/swine/Iowa/A0109034/2010 (A/H3N2) segment 4 (HA) 2737.9 0.000000e+00 1628/1701 (95%)
EPI314796 A/swine/Pennsylvania/602170-4/2010 (A/H3N2) segment 4 (HA) 2737.9 0.000000e+00 1629/1702 (95%)
EPI336800 A/swine/Quebec/1257777/2010 (A/H3N2) segment 4 (HA) 2732.3 0.000000e+00 1624/1695 (95%)
EPI318106 A/swine/Iowa/A01049185/2010 (A/H3N2) segment 4 (HA) 2732.3 0.000000e+00 1630/1704 (95%)
EPI324851 A/swine/Iowa/A01049317/2010 (A/H3N2) segment 4 (HA) 2726.8 0.000000e+00 1629/1704 (95%)
EPI314663 A/swine/QC/1685-1/2009 (A/H3N2) segment 4 (HA) 2726.8 0.000000e+00 1628/1703 (95%)
EPI307943 A/swine/Iowa/A01057188/2010 (A/H3N2) segment 4 (HA) 2726.8 0.000000e+00 1629/1704 (95%)
EPI302647 A/swine/Illinois/53612-2/2009 (A/H3N2) segment 4 (HA) 2721.2 0.000000e+00 1628/1704 (95%)
EPI302646 A/swine/Illinois/53612-1/2009 (A/H3N2) segment 4 (HA) 2721.2 0.000000e+00 1628/1704 (95%)
EPI244297 A/Kansas/13/2009 (A/H3N2) segment 4 (HA) 2721.2 0.000000e+00 1628/1704 (95%)
EPI25393 A/turkey/ Minnesota/764-2/03 (A/H3N2) segment 4 (HA) 2721.2 0.000000e+00 1629/1705 (95%)
EPI338543 A/swine/Minnesota/A01049936/2011 (A/H3N2) segment 4 (HA) 2715.7 0.000000e+00 1627/1704 (95%)
EPI314664 A/swine/QC/1685-5/2009 (A/H3N2) segment 4 (HA) 2715.7 0.000000e+00 1626/1703 (95%)
EPI230035 A/swine/Wisconsin/R7c/2001 (A/H3N2) segment 4 (HA) 2715.7 0.000000e+00 1627/1704 (95%)
EPI25391 A/turkey/North Carolina/12344/03 (A/H3N2) segment 4 (HA) 2715.7 0.000000e+00 1628/1705 (95%)
EPI314795 A/swine/Pennsylvania/602170-2/2010 (A/H3N2) segment 4 (HA) 2710.2 0.000000e+00 1624/1702 (95%)
EPI219360 A/swine/Kansas/015252/2009 (A/H3N2) segment 4 (HA) 2710.2 0.000000e+00 1625/1703 (95%)
EPI314695 A/swine/QC/440-A/2009 (A/H3N2) segment 4 (HA) 2700.9 0.000000e+00 1626/1706 (95%)
EPI302658 A/swine/Illinois/53612-5/2009 (A/H3N2) segment 4 (HA) 2699.1 0.000000e+00 1625/1705 (95%)
EPI302653 A/swine/Illinois/53612-4/2009 (A/H3N2) segment 4 (HA) 2693.5 0.000000e+00 1624/1705 (95%)
EPI292016 A/swine/Iowa/H03BF5/2003 (A/H3N2) segment 4 (HA) 2689.8 0.000000e+00 1624/1706 (95%)
EPI314515 A/quail/QC/FAV-10/2008 (A/H3N2) segment 4 (HA) 2688.0 0.000000e+00 1620/1702 (95%)

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niman
PostPosted: Fri Nov 04, 2011 12:47 pm 
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Partial NS sequence from A/Maine/07/2011 released.

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niman
PostPosted: Fri Nov 04, 2011 12:48 pm 
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Posts: 27558
Location: Pittsburgh, PA USA
niman wrote:
Partial NS sequence from A/Maine/07/2011 released.

EPI341331 A/Maine/07/2011 (A/H3N2) segment 8 (NS) 590.2 1.970108e-167 319/319 (100%)
EPI339165 A/Maine/06/2011 (A/H3N2) segment 8 (NS) 584.7 9.166020e-166 318/319 (99%)
EPI335633 A/Indiana/08/2011 (A/H3N2) segment 8 (NS) 579.1 4.264534e-164 317/319 (99%)
EPI335614 A/Pennsylvania/09/2011 (A/H3N2) segment 8 (NS) 579.1 4.264534e-164 317/319 (99%)
EPI333147 A/Indiana/08/2011 (A/H3N2) segment 8 (NS) 579.1 4.264534e-164 317/319 (99%)
EPI312978 A/Pennsylvania/40/2010 (A/H3N2) segment 8 (NS) 579.1 4.264534e-164 317/319 (99%)
EPI293969 A/Minnesota/11/2010 (A/H3N2) segment 8 (NS) 579.1 4.264534e-164 317/319 (99%)
EPI244304 A/Kansas/13/2009 (A/H3N2) segment 8 (NS) 579.1 4.264534e-164 317/319 (99%)
EPI340978 A/Indiana/10/2011 (A/H3N2) segment 8 (NS) 573.6 1.984095e-162 316/319 (99%)
EPI335625 A/Pennsylvania/10/2011 (A/H3N2) segment 8 (NS) 573.6 1.984095e-162 316/319 (99%)
EPI335622 A/Pennsylvania/11/2011 (A/H3N2) segment 8 (NS) 573.6 1.984095e-162 316/319 (99%)
EPI314794 A/swine/Minnesota/A01047613/2010 (A/H1N1) segment 8 (NS) 568.0 9.231095e-161 311/313 (99%)
EPI302684 A/swine/Pennsylvania/62170-4/2010 (A/H3N2) segment 8 (NS) 568.0 9.231095e-161 311/313 (99%)
EPI302681 A/swine/Pennsylvania/62170-3/2010 (A/H3N2) segment 8 (NS) 568.0 9.231095e-161 311/313 (99%)
EPI302669 A/swine/Pennsylvania/62170-1/2010 (A/H3N2) segment 8 (NS) 568.0 9.231095e-161 311/313 (99%)
EPI291889 A/Wisconsin/12/2010 (A/H3N2) segment 8 (NS) 568.0 9.231095e-161 311/313 (99%)
EPI291861 A/Pennsylvania/14/2010 (A/H3N2) segment 8 (NS) 568.0 9.231095e-161 311/313 (99%)
EPI291834 A/Minnesota/09/2010 (A/H3N2) segment 8 (NS) 568.0 9.231095e-161 311/313 (99%)
EPI291819 A/Michigan/09/2007 (A/H1N2) segment 8 (NS) 568.0 9.231095e-161 311/313 (99%)
EPI281224 A/swine/Iowa/02039/2008 (A/H1N2) segment 8 (NS) 568.0 9.231095e-161 315/319 (98%)
EPI323271 A/swine/Minnesota/66960/2006 (A/H3N2) segment 8 (NS) 562.5 4.294811e-159 314/319 (98%)
EPI337461 A/swine//Ohio/02026/2008 (A/H1N1) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI302672 A/swine/Pennsylvania/62170-2/2010 (A/H3N2) segment 8 (NS) 557.0 1.998181e-157 310/314 (98%)
EPI281223 A/swine/Ohio/02026/2008 (A/H1N1) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI281217 A/swine/North Carolina/02084/2008 (A/H1N1) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI220928 A/swine/Texas/050593/2008 (A/H1N2) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI220903 A/swine/Oklahoma/042169/2008 (A/H1N2) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI220895 A/swine/Oklahoma/032726/2008 (A/H1N2) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI220887 A/swine/Oklahoma/020736-2/2008 (A/H1N2) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI220879 A/swine/Oklahoma/020736-1/2008 (A/H1N2) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI220855 A/swine/Oklahoma/016179-9/2008 (A/H1N2) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI220847 A/swine/Oklahoma/016179-8/2008 (A/H1N2) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI220839 A/swine/Oklahoma/011521-5/2008 (A/H1N2) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI220831 A/swine/Oklahoma/011521-4/2008 (A/H1N2) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI220823 A/swine/Oklahoma/011289-9/2008 (A/H1N2) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI220815 A/swine/Oklahoma/011289-8/2008 (A/H1N2) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI220807 A/swine/Oklahoma/011289-10/2008 (A/H1N2) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI220791 A/swine/Oklahoma/010710-8/2008 (A/H1N2) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI220783 A/swine/Oklahoma/010226-17/2008 (A/H1N2) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI220775 A/swine/Oklahoma/010226-16/2008 (A/H1N2) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI219372 A/swine/Oklahoma/001142/2009 (A/H3N2) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI173662 A/swine/OH/511445/2007 (A/H1N1) segment 8 (NS) 557.0 1.998181e-157 313/319 (98%)
EPI337525 A/swine/Minnesota/001581/2007 (A/H1N1) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI337509 A/swine/Minnesota/02324/2008 (A/H1N2) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI337477 A/swine/Minnesota/SG1133/2008 (A/H1N2) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI337379 A/swine/Minnesota/001200/2006 (A/H1N1) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI337360 A/swine/Minnesota/SG1138/2002 (A/H1N1) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI337353 A/swine/Minnesota/01146/2006 (A/H3N2) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI335017 A/swine/North Carolina/18161/2002 (A/H1N1) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI323204 A/swine/Minnesota/65767/2006 (A/H3N2) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI291950 A/swine/Iowa/H03UWF2/2003 (A/H1N1) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI229376 A/turkey/OH/313053/2004 (A/H3N2) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI225763 A/swine/Minnesota/D06-28374.35/2006 (A/H1N1) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI222678 A/swine/Oklahoma/008722/2007 (A/H3N2) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI220911 A/swine/Oklahoma/053259/2008 (A/H1N2) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI220871 A/swine/Oklahoma/020734-3/2008 (A/H1N2) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI220863 A/swine/Oklahoma/020734-2/2008 (A/H1N2) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI219364 A/swine/Kansas/015252/2009 (A/H3N2) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI184475 A/mallard/South Dakota/Sg-00128/2007 (A/H3N2) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI184469 A/mallard/South Dakota/Sg-00127/2007 (A/H3N2) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI184457 A/mallard/South Dakota/Sg-00125/2007 (A/H3N2) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI177595 A/swine/Hong Kong/78/2003 (A/H1N2) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI101397 A/turkey/Ohio/313053/04 (A/H3N2) segment 8 (NS) 551.4 9.296633e-156 312/319 (97%)
EPI327283 A/swine/Texas/4199-2/1998 (A/H3N2) segment 8 (NS) 549.6 3.343664e-155 311/318 (97%)
EPI337517 A/swine/Minnesota/001444/2007 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI337493 A/swine/Illinois/SG1141/2003 (A/H1N1) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI337445 A/swine/Minnesota/00611/2005 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI337366 A/swine/Minnesota/00709/2005 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI337345 A/swine/Iowa/01700/2007 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI335065 A/swine/Minnesota/1192/2001 (A/H1N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI324168 A/SW/MB/5-5/2009 (A/H1N1) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI324039 A/swine/QC/1695-3/2009 (A/H1N1) segment 8 (NS) 545.9 4.325302e-154 307/313 (98%)
EPI323266 A/swine/Minnesota/66853/2006 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI314691 A/swine/QC/440-A/2009 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI314683 A/swine/QC/1840-2/2009 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI314639 A/swine/QC/382/2009 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI314331 A/turkey/BC/1529-3/2005 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI307933 A/swine/Pennsylvania/057108-1/2010 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 308/314 (98%)
EPI295329 A/swine/South Dakota/152B/2009 (A/H1N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI291959 A/swine/Iowa/H02AS8/2002 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI291958 A/swine/Iowa/H03G1/2003 (A/H1N1) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI291903 A/Ohio/02/2007 (A/H1N1) segment 8 (NS) 545.9 4.325302e-154 307/313 (98%)
EPI291854 A/Ohio/01/2007 (A/H1N1) segment 8 (NS) 545.9 4.325302e-154 307/313 (98%)
EPI227578 A/turkey/NC/353568/2005 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI227561 A/swine/Oklahoma/D05-52884/2005 (A/H1N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI222660 A/swine/Minnesota/D07-031231.3/2007 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI184463 A/northern pintail/South Dakota/Sg-00126/2007 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI168654 A/turkey/North Carolina/353568/2005 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI168649 A/turkey/Minnesota/366767/2005 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI164075 A/swine/Korea/CAS09/2006 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 307/313 (98%)
EPI164074 A/swine/Korea/CAS07/2005 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 307/313 (98%)
EPI164073 A/swine/Korea/CAN04/2005 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 307/313 (98%)
EPI158872 A/turkey/MN/366767/2005 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI98720 A/swine/MI/PU243/04 (A/H3N1) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI25408 A/turkey/ Minnesota/764-2/03 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI25405 A/turkey/North Carolina/12344/03 (A/H3N2) segment 8 (NS) 545.9 4.325302e-154 311/319 (97%)
EPI5876 A/Swine/Iowa/8548-1/98 (A/H3N2) segment 8 (NS) 544.0 1.555655e-153 308/315 (97%)
EPI5873 A/Swine/Minnesota/9088-2/98 (A/H3N2) segment 8 (NS) 544.0 1.555655e-153 308/315 (97%)
EPI5870 A/Swine/Texas/4199-2/98 (A/H3N2) segment 8 (NS) 544.0 1.555655e-153 308/315 (97%)
EPI222648 A/swine/Minnesota/07002083/2007 (A/H1N1) segment 8 (NS) 542.2 5.595132e-153 307/314 (97%)

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niman
PostPosted: Fri Nov 04, 2011 12:56 pm 
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Posts: 27558
Location: Pittsburgh, PA USA
Indiana and Maine week 43 unsubtypables not in week 43 FluView

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niman
PostPosted: Fri Nov 04, 2011 12:58 pm 
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FluView wk 43 comments:

Two human infections with novel influenza A viruses were detected in individuals from two states (Indiana and Maine). Both patients were infected with swine-origin influenza A (H3N2) viruses. One patient was hospitalized, but has now been discharged and both continue to recover from their illnesses. Both patients reported close contacts with pigs preceding their illness onset. There is no evidence of an epidemiological link between these two patients and no sustained human-to-human transmission of these viruses has been found in either state. Additional information on these cases is available at http://www.cdc.gov/media/haveyouheard/s ... irus2.html

CDC is required to report all cases of human infection with novel influenza viruses – including swine influenza viruses -- to the World Health Organization (WHO) as part of the International Health Regulations (IHR). Domestically, CDC reports these cases in this report and on its website. Early identification and investigation of human infections with novel influenza A viruses is critical to evaluate the extent of the outbreak and possible human-to-human transmission. Additional information on influenza in pigs and swine-origin influenza infection in humans can be found at http://www.cdc.gov/flu/swineflu/

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niman
PostPosted: Fri Nov 04, 2011 12:59 pm 
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CDC Confirms the 6th and 7th Cases of Swine-Origin Influenza A H3N2 Virus with 2009 H1N1 M Gene


CDC has confirmed two additional cases of human infection with a swine–origin influenza A (H3N2) virus that carries the M gene from the 2009 H1N1 virus. The cases were reported by Maine and Indiana. There is no evidence at this time of an epidemiological link between these two patients or any person to person transmission associated with either of these cases. Both patients reported exposure to pigs prior to their illness. Human infections with swine influenza viruses are rare, but do occur. In most cases, these infections are associated with exposure to infected pigs.

The swine-origin influenza A (H3N2) virus with the M gene acquired from the 2009 H1N1 virus that caused the 2009-2010 pandemic was first detected in a child in Indiana in July 2011. Subsequently, three additional cases (cases 2 through 4) of human infection with swine–origin influenza A (H3N2) viruses carrying the same genetic change were detected in Pennsylvania. A fifth case was identified in Maine in October. All of these prior cases had direct exposure to pigs, except for one patient who had a caretaker with swine exposure.

The acquisition of the M gene likely occurred as a result of swine being co–infected with the swine influenza A (H3N2) virus and the human 2009 H1N1 virus. (A visual interpretation of this reassortant process is available at http://www.cdc.gov/media/haveyouheard/s ... igimg.html.) While we know the M gene plays a role in influenza virus infection, assembly and replication, the significance of this change in these swine–origin influenza A (H3N2) viruses is unknown at this time. CDC continues to investigate the implications of this genetic change.

Both of the most recent patients confirmed with swine–origin influenza A (H3N2) infection had been in close contact with live pigs during the week prior to their illness onset. Both patients have recovered from their illness.
Seasonal flu vaccine would not be expected to protect against these swine flu viruses because they are very different from seasonal human influenza A (H3N2) viruses. While there is no vaccine to protect humans against these swine–origin influenza viruses, there are two FDA–cleared drugs that can be used to treat illness with these viruses. The antiviral drugs oseltamivir and zanamivir – which are used to treat infection with human seasonal influenza viruses – also have shown activity against swine–origin influenza viruses.

These reports bring the total number of confirmed cases of human infection with swine–origin influenza A viruses in the United States to 28 since 2005, with 15 of these having been infected with swine–origin influenza A (H3N2) viruses, and seven of these being the H3N2 virus with the M gene from the 2009 H1N1 virus.
Pigs can become infected with and spread influenza viruses, including swine, human and avian influenza viruses. Ill pigs infected with flu viruses may exhibit signs similar to human influenza infections, such as coughing (barking), lack of appetite, runny nose and lethargy.

CDC is required to report all cases of human infection with novel influenza viruses – including swine influenza viruses -- to the World Health Organization (WHO) as part of the International Health Regulations (IHR). CDC also reports these cases in its weekly influenza surveillance report, FluView. Although the vast majority of human infections with novel influenza viruses do not result in human-to-human transmission, these cases should be fully investigated to be sure that such viruses are not spreading among humans and to limit further exposure of humans to infected animals if infected animals are identified.

More information on swine influenza viruses is available at http://www.cdc.gov/flu/swineflu.

http://www.cdc.gov/media/haveyouheard/s ... irus2.html

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