Rhiza Labs FluTracker Forum

hmm, my program (http://magictour.free.fr/seq/seq1.exe)
with switch t=1 , still ignores positions where no full
nucleotide (A,C,G,T) mutation occurs.

It makes some sense to list those positions in caes like this.
(but not so much in Alberta-swine or Singapore/2009 or such)
So I changed it for you, honey.
I hope it works correctly and I didn't include another bug

                                            00000000000000000000000000011111 
                                            00011223334455666677788889901224 
                                            16934080296813056811204680585130 
                                            64152723462966783156619553708538 
-codon-position-----------------------------111 1        211  12   1       1 
---Index------------------------------------GAGCAGCTCGTAAGGTACGAGACGTTAGGATC 
   1 >A/Mexflu/index/2009/02/01             ................................ 
   2 >A/New Jersey/AF21791,2011/01/13       ....G..C.A...AAATT.....ACGGA.--- 
   3 >A/Florida/AF21771,2011/01/12          A.A.G....A...AAA.T.....A.GGA.--- 
   4 >A/North Carolina/AF21796,2011/01/18   AG..G...TA...AAA.T....TA.GGA.--- 
   5 >A/South Carolina/AF21803,2011/01/14   AG..G...TA...AAA.T....TA.GGAA--- 
   6 >A/Arizona/AF21768,2011/01/07          AG..G...TA..GAAA.T..A.TA.GGA.--- 
   7 >A/Mexico/InDRE1945,2011/03/           ...TGAT..AAC.AAA.TA....A.GGA.GCT 
   8 >A/Mexico/InDRE1946,2011/03/22         ...TGAT..AAC.AAA.T.....A.GGA.GCT 
   9 >A/Mexico/InDRE1947,2011/03/23         ...TGA...AAC.AAA.T...G.A.GGA.GCT 
  10 >A/Mexico/InDRE2192,2011/03/28         ---------AAC.AAA.T...----------- 
  11 >A/Mexico/InDRE2195,2011/03/28         ---------AAC.AAA.TRR.----------- 
  12 >A/Mexico/InDRE2197,2011/03/28         ---------AAC.AAA.T...----------- 
  13 >A/Mexico/InDRE2200,2011/03/29         ---------AAC.AAA.T...----------- 
  14 >A/Mexico/InDRE2222,2011/03/31         ---------AAC.AAA.T...----------- 
                                                                             
---Index------------------------------------GAGCAGCTCGTAAGGTACGAGACGTTAGGATC 
-codon-position-----------------------------111 1        211  12   1       1 
                                            00000000000000000000000000011111 
                                            00011223334455666677788889901224 
                                            16934080296813056811204680585130 
                                            64152723462966783156619553708538 

.

.

_________________
no patents on genes, publish the GISAID sequences !

You may have put exiting data on the table so to speak, but your analysis and presentation remain fatally flawed. The Chihuahua subclade is all about D225N, and you have done your best to try to minimize its role, but the sub-clade continues to spread and kill regadless of the nonsense you post or the WHO nonsense about no significant change, ala Ukraine with D225G and D225N.
The Chihuahua sequencers know the D225N is an issue, which is why it is in their title and why so many sequences with D225N have been withheld.
Your posts confirm that you have no idea of what is in the databases and what the data means, no reassortment required.

_________________
www.twitter.com/hniman

Speaking of real data, the presence of D225N and D225G are in the title of a thread on the Chihuahua sub-clade on this board

viewtopic.php?f=5&t=7088

_________________
www.twitter.com/hniman

tss,tss,how could I forget about D225N in Chihuahua ...forgive me

could have been gisaid only ?!
I just looked at my printed table, wanted to check with t=1,
had to reboot because of a computer-error, save the thread first so it
isn't lost, correct later ...
but you were faster

no intention involved like the multiple times before
when you wrongly suspected such

recombination in Italy ? Milan/10 , see FT
http://www.ncbi.nlm.nih.gov/nuccore/JF801860?

_________________
no patents on genes, publish the GISAID sequences !

D225N is the Chihuahua story. You remain clueless beyond belief.

_________________
www.twitter.com/hniman

Witheld by whom and why?

The sequencers in Mexico are holding the sequences because of the Easter holiday (500,000 visit Chihuahua over the holiday).

_________________
www.twitter.com/hniman

The location of the ILI spike is Águilas de Zaragoza, Juárez, Chihuahua, México
and is located at interactive google link below

http://maps.google.com/maps?f=q&source= ... o&t=h&z=14

_________________
www.twitter.com/hniman

The above link was added because I noticed that on one of the babble boards the story was being hijacked by comments about one hospital or speculation that the 355 ILI cases really weren't ill.

The New Mexico website with the week 14 ILI data
http://nmhealth.org/flu/documents/Weekl ... 1.Wk14.pdf
includes this footnote

Influenza-like Activity (ILI) is defined as Fever ( 100F [37.8 C], oral or equivalent) AND cough and/or sore throat in absence of a KNOWN cause other than influenza.

Thus, an ILI patient is not somone who walks into the clinic and THINKS or SAYS they have the flu. They need to meet the above requirement, which includes a MEASURABLE FEVER.

The google map link shows that the clinic is in southeastern Juarez and the focal point of the H1N1 outbreak was at the EASTERN Traffic Station consistent with the location of the spike in ILI cases in week14.

_________________
www.twitter.com/hniman

that's the US(CDC)-definition
Mexico presumably has other rules

_________________
no patents on genes, publish the GISAID sequences !