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niman
PostPosted: Thu Jan 13, 2011 9:08 pm 
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CDC has released the sequences (at GISAID) from the two fatal cases (45M & 22M) in Lehigh, PA (A/Pennsylvania/16/2010 & A/Pennsylvania/17/2010). Both have S186P.

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niman
PostPosted: Thu Jan 13, 2011 9:38 pm 
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Location: Pittsburgh, PA USA
niman wrote:
CDC has released the sequences (at GISAID) from the two fatal cases (45M & 22M) in Lehigh, PA (A/Pennsylvania/16/2010 & A/Pennsylvania/17/2010). Both have S186P.

Both sequences are IDENTICAL and closely related to UK.

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niman
PostPosted: Thu Jan 13, 2011 9:44 pm 
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Location: Pittsburgh, PA USA
CDC released of full set of sequences for PA/17 (45M).

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niman
PostPosted: Thu Jan 13, 2011 9:53 pm 
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Posts: 27362
Location: Pittsburgh, PA USA
T35G

EPI295481 A/Pennsylvania/17/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295474 A/Pennsylvania/16/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI286650 A/India/Srinagar/7/2010 H1N1 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI230123 A/OSAKA/2024/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613

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niman
PostPosted: Thu Jan 13, 2011 9:56 pm 
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Joined: Wed Aug 19, 2009 10:42 am
Posts: 27362
Location: Pittsburgh, PA USA
A137T
EPI300987 A/Bangladesh/8003/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI298423 A/Shahriar/5336/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI298420 A/Bandar Abbas/5096/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI297253 A/Kobe/91524/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI296646 A/Thailand/ST_0153/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI296645 A/Thailand/ST_0111/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI296644 A/Thailand/ST_0113/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI296643 A/Thailand/ST_0112_1/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI296642 A/Thailand/SN_0112_2/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295750 A/England/5500192/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295741 A/England/139/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295740 A/England/119/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295738 A/England/125/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295733 A/England/99/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295732 A/England/4500186/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295731 A/England/93/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295730 A/England/83/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295729 A/England/91/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295728 A/England/90/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295727 A/England/87/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295725 A/England/85/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295724 A/England/79/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295519 A/New Hampshire/03/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295516 A/Bhutan/72/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295501 A/Bangladesh/1685/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295481 A/Pennsylvania/17/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295474 A/Pennsylvania/16/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295396 A/SAGA/90/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295385 A/SAGA/85/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295384 A/CHIBA/23/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI294682 A/England/118/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI294040 A/NAGANO/2181/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI294029 A/YOKOHAMA/84/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI287707 A/Qingdao/1629/2009 (A/H1N1) segment 4 (HA) 27.0 5.92613
EPI287706 A/Qingdao/1626/2009 (A/H1N1) segment 4 (HA) 27.0 5.92613
EPI286652 A/Stockholm/5/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI281690 A/Alagoas/266/2010 (A/H1N1) segment 4 (HA) 27.0 5.92613
EPI281689 A/Alagoas/201/2010 (A/H1N1) segment 4 (HA) 27.0 5.92613
EPI281688 A/Alagoas/171/2010 (A/H1N1) segment 4 (HA) 27.0 5.92613
EPI281687 A/Alagoas/166/2010 (A/H1N1) segment 4 (HA) 27.0 5.92613
EPI281686 A/Alagoas/143/2010 (A/H1N1) segment 4 (HA) 27.0 5.92613
EPI281684 A/Alagoas/119/2010 (A/H1N1) segment 4 (HA) 27.0 5.92613
EPI280326 A/Wisconsin/08/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI280286 A/Florida/13/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI279208 A/CANBERRA/8/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI278875 A/India/007/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI273897 A/India/3725/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI272392 A/CHIBA-C/22/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI254673 A/Seoul/1870/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI253286 A/Hunan/SWL5/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI253182 A/Shanghai/SWL6/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI249308 A/Wisconsin/629-D01556/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI249292 A/Wisconsin/629-D01244/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI246052 A/YAMAGATA/721/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI244041 A/KYOTO/2/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI241235 A/Roma/ISS223/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI240603 A/NIIGATA/1371/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI240572 A/ENG/434/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI233085 A/VICTORIA/2131/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI232364 A/Moldova/G-170/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI227842 A/Texas/67/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI227705 A/Michigan/10/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI227701 A/Michigan/10/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI223193 A/Wisconsin/629-D00739/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI218770 A/Wisconsin/629-D01147/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI216612 A/Shanghai/SWL2/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI215973 A/Moldova/G-170/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI214482 A/Wisconsin/629-D01445/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI214061 A/Toronto/T0106/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI212349 A/Italy/128/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI211994 A/Catalonia/S1169/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI211477 A/North Carolina/28/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI210452 A/Qatar/89/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI210392 A/Ukraine/259/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI194194 A/Michigan/06/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI187706 A/Ancona/04/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI186849 A/Shanghai/60T/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613

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niman
PostPosted: Thu Jan 13, 2011 9:58 pm 
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Joined: Wed Aug 19, 2009 10:42 am
Posts: 27362
Location: Pittsburgh, PA USA
S186P

EPI300987 A/Bangladesh/8003/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI298423 A/Shahriar/5336/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI298420 A/Bandar Abbas/5096/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI296646 A/Thailand/ST_0153/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI296645 A/Thailand/ST_0111/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI296644 A/Thailand/ST_0113/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI296643 A/Thailand/ST_0112_1/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI296642 A/Thailand/SN_0112_2/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295750 A/England/5500192/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295741 A/England/139/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295738 A/England/125/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295733 A/England/99/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295731 A/England/93/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295730 A/England/83/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295729 A/England/91/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295728 A/England/90/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295727 A/England/87/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295725 A/England/85/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295724 A/England/79/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295519 A/New Hampshire/03/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295501 A/Bangladesh/1685/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295481 A/Pennsylvania/17/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295474 A/Pennsylvania/16/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295396 A/SAGA/90/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295385 A/SAGA/85/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295384 A/CHIBA/23/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI294682 A/England/118/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI294040 A/NAGANO/2181/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI294029 A/YOKOHAMA/84/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI288179 A/Belgorod/RII4/2009 (A/H1N1) segment 4 (HA) 27.0 5.92613
EPI286652 A/Stockholm/5/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI284314 A/Myanmar/M536/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI280326 A/Wisconsin/08/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI280286 A/Florida/13/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI279208 A/CANBERRA/8/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI279016 A/GOROKA/16/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI278875 A/India/007/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI278516 A/Ukraine/122/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI278514 A/Ukraine/123/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI277042 A/Singapore/478/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI273897 A/India/3725/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI272842 A/Qingdao/492/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI272392 A/CHIBA-C/22/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI272008 A/WELLINGTON/1/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI269839 A/turkey/Ontario/FAV114-17/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI269838 A/turkey/Ontario/FAV117-1C/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI259196 A/swine/NC/19646/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI257748 A/Jiangxi-Donghu/SWL1172/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI256035 A/Thessaloniki/791/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI252354 A/Ontario/25913/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI246200 A/swine/IL/5265-2/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI246197 A/swine/IL/5265-1/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI244054 A/swine/Illinois/02960/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI244053 A/swine/Illinois/02957/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI244041 A/KYOTO/2/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI238359 A/Chernihiv/857/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI237302 A/California/VRDL7/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI230786 A/Ankara/17/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI230497 A/swine/4/Mexico/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI217181 A/Tennessee/17/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI215819 A/DARWIN/2126/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI210034 A/FUKUOKA-C/2/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613

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niman
PostPosted: Thu Jan 13, 2011 10:01 pm 
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Joined: Wed Aug 19, 2009 10:42 am
Posts: 27362
Location: Pittsburgh, PA USA
T933C

EPI300987 A/Bangladesh/8003/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI300975 A/Utah/05/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI298423 A/Shahriar/5336/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295741 A/England/139/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295733 A/England/99/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295731 A/England/93/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295729 A/England/91/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295728 A/England/90/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295725 A/England/85/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295724 A/England/79/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295516 A/Bhutan/72/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295501 A/Bangladesh/1685/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295481 A/Pennsylvania/17/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295474 A/Pennsylvania/16/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295396 A/SAGA/90/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295385 A/SAGA/85/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295384 A/CHIBA/23/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI287707 A/Qingdao/1629/2009 (A/H1N1) segment 4 (HA) 27.0 5.92613
EPI287706 A/Qingdao/1626/2009 (A/H1N1) segment 4 (HA) 27.0 5.92613
EPI287699 A/Qingdao/1508/2009 (A/H1N1) segment 4 (HA) 27.0 5.92613
EPI280326 A/Wisconsin/08/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI278586 A/Madagascar/95/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI278584 A/Madagascar/555/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI278576 A/Madagascar/1/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI276478 A/SC/68/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI276267 A/ENG/801/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI272429 A/YOKOSUKA/2/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI271323 A/Brussels/INS243/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI270639 A/California/VRDL2/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI266007 A/Tver/CRIE-ZC/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI256462 A/Zhejiang/SWL3/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI256398 A/Neimenggu-Hangjinhouqi/SWL54/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI256394 A/Neimenggu-Hangjinhouqi/SWL53/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI256390 A/Neimenggu-Hangjinhouqi/SWL51/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI255178 A/Yaroslavl/IIV-196/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI253731 A/Berlin/121/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI253058 A/Texas/JMS411/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI247802 A/Wisconsin/629-D00128/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI247058 A/Delhi/NIV3704/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI246884 A/New York/6810/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI245191 A/Australia/80/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI245135 A/Australia/66/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI245047 A/Australia/53/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI244991 A/Australia/42/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI244975 A/Australia/39/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI244892 A/Australia/25/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI243775 A/Tanzania/393/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI240758 A/Pavia/8/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI236982 A/Australia/6/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI234474 A/Shandong/SWL4116/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI233070 A/WELLINGTON/232/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI232991 A/OKAYAMA/17/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI227827 A/St Petersburg/03/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI223369 A/Texas/43292238/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI222789 A/Nagasaki/HA-57/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI221364 A/Nagasaki/HA-63/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI219295 A/Zhejiang/DTID-ZJU03/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI218519 A/Texas/43242018/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI217175 A/Tanzania/393/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI217173 A/Tanzania/386/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI217170 A/Tanzania/381/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI215908 A/NEW CALEDONIA/22/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI215767 A/EAST TIMOR/2003/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI215754 A/DARWIN/2128/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI215707 A/SYDNEY/2501/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI214870 A/Zhejiang/DTID-ZJU02/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI214865 A/Zhejiang-Yiwu/11/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI212307 A/Hangzhou/1/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI194170 A/Iraq/10249/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI194164 A/Iraq/0251/2009 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613

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ReadyMom
PostPosted: Thu Jan 13, 2011 11:07 pm 
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Posts: 154
Location: Central Pennsylvania
Can you please explain to me 'sequences'.
Quote:
EPI295501 A/Bangladesh/1685/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295481 A/Pennsylvania/17/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295474 A/Pennsylvania/16/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295396 A/SAGA/90/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613


What is EP1295501?
A is the strain
Pennsylvania is the location of the case
17 must be the number of the case
2010 is the yr

I don't understand the rest.

Do they all read like a map in the list tracking transmission? (So sorry for being so ignorant of all this :blush: ). -k
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niman
PostPosted: Thu Jan 13, 2011 11:27 pm 
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Posts: 27362
Location: Pittsburgh, PA USA
ReadyMom wrote:
Can you please explain to me 'sequences'.
Quote:
EPI295501 A/Bangladesh/1685/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295481 A/Pennsylvania/17/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295474 A/Pennsylvania/16/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613
EPI295396 A/SAGA/90/2010 (A/H1N1 swl) segment 4 (HA) 27.0 5.92613


What is EP1295501?
A is the strain
Pennsylvania is the location of the case
17 must be the number of the case
2010 is the yr

I don't understand the rest.

Do they all read like a map in the list tracking transmission? (So sorry for being so ignorant of all this :blush: ). -k

EPI1295501 is the accession number
A/H1N1 is the serotype
swl is the lineage - "swl" stands for swine-like, which is science for pandemic H1N1
segment 4 is HA
HA is hemagglutinin

The numbers at the end have to do with the strengency of the search

Those is a given list are all sequences in the database that share a given polymorphism ("mutation") as well as identity adjacent to the "mutation".

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niman
PostPosted: Fri Jan 14, 2011 7:12 am 
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Posts: 27362
Location: Pittsburgh, PA USA
Commentary

http://www.recombinomics.com/News/01141 ... UK_US.html

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