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  • #1

    genbank statistics

    genbank release 189.0 is out (21.Apr.2012)
    ftp://ftp.ncbi.nih.gov/genbank/gbrel.txt


    Code:
    number,code,files,sequences,nucleotides,name
---------------------------------------------
 12 ,EST, 461 , 72644911 , 40395013270 ,expressed sequence tags
 16 ,HTG, 136 ,   146372 , 24371740442 ,high throughput genomic
 15 ,GSS, 255 , 33921273 , 21587774061 ,genome survey
 13 ,PAT, 178 , 23988262 , 11941467633 ,patent
  7 ,BCT,  85 ,   823012 ,  8011103134 ,bacterial
  1 ,PRI,  45 ,   663665 ,  6277006564 ,primate
  6 ,PLN,  55 ,  2424604 ,  5291469882 ,plant fungal algal
  2 ,ROD,  29 ,   439271 ,  4425470108 ,rodent
 19 ,TSA,  70 ,  6024687 ,  4038324975 ,???
 18 ,ENV,  53 ,  4685451 ,  3215023639 ,Environmental sampling
  4 ,VRT,  26 ,  1039878 ,  2831711043 ,other vertebrate
  5 ,INV,  30 ,  1549678 ,  2418282443 ,invertebrate
  8 ,VRL,  20 ,  1162210 ,  1341502602 ,viral
 10 ,SYN,   7 ,   122994 ,   925854875 ,synthetic
  3 ,MAM,   8 ,   307782 ,   847879863 ,other mammalian
 14 ,STS,  20 ,  1322634 ,   636256682 ,sequence tagged sites
 17 ,HTC,  15 ,   551007 ,   634340429 ,high throughput cDNA
  9 ,PHG,   1 ,     6491 ,    76133941 ,bacteriophage
 11 ,UNA,   1 ,      239 ,      125812 ,unannotated
 20 ,CON   0,       0,       0,constructed

    4.84 GB of virus-records in 20 files when uncompressed
    1162210 virus sequences, 200831(17.3&#37 of these are influenza
    ~1340M virus-nucleotides , 297734743 of these in influenza
    1482 nucleotides per influenza sequence in average

    the 100 most sequenced viruses are:

    439744,Human immunodeficiency virus
    190649,Influenza A virus
    117618,Hepatitis C virus
    40356,Hepatitis B virus
    22960,Simian immunodeficiency virus
    13573,Rabies virus
    13126,Human herpesvirus
    12727,Porcine reproductive and respiratory syndrome virus
    11305,Dengue virus
    10036,Norovirus
    9427,Influenza B virus
    9119,Human papillomavirus
    8854,Rotavirus
    7648,Human echovirus
    7621,Human enterovirus
    7090,Human rotavirus
    6701,Measles virus
    6127,Human coxsackievirus
    5515,Human rhinovirus
    5514,Newcastle disease virus
    5171,Hepatitis A virus
    5124,Human respiratory syncytial virus
    5096,Torque teno virus
    4639,Foot-and-mouth disease virus
    4568,Hepatitis E virus
    4195,Human metapneumovirus
    4037,GB virus
    3645,JC polyomavirus
    3628,Human adenovirus
    3610,Human T-lymphotropic virus
    3118,Human poliovirus
    3072,Infectious bronchitis virus
    2764,Bovine viral diarrhea virus
    2480,Infectious bursal disease virus
    2442,Tomato spotted wilt virus
    2394,Feline immunodeficiency virus
    2331,Citrus tristeza virus
    2302,West Nile virus
    2046,Porcine circovirus
    1903,BK polyomavirus
    1749,Equine infectious anemia virus
    1730,Japanese encephalitis virus
    1718,Human bocavirus
    1693,Human astrovirus
    1638,Human parechovirus
    1637,Small ruminant lentivirus
    1521,Potato virus
    1435,Bluetongue virus
    1430,Classical swine fever virus
    1414,Human parvovirus
    1345,African swine fever virus
    1334,Cucumber mosaic virus
    1327,Hepatitis delta virus
    1290,Chikungunya virus
    1264,Feline coronavirus
    1227,Ovine progressive pneumonia virus
    1144,Sapovirus
    1142,Tick-borne encephalitis virus
    1084,Bovine rotavirus
    1083,Grapevine leafroll-associated virus
    1057,Turnip mosaic virus
    985,Human endogenous retrovirus
    980,Gallid herpesvirus
    973,Rubella virus
    968,Human coronavirus
    959,Infectious salmon anemia virus
    956,Canine distemper virus
    946,Canine parvovirus
    938,Mumps virus
    933,Tomato yellow leaf curl virus
    933,Beet necrotic yellow vein virus
    864,Buggy Creek virus
    862,Equid herpesvirus
    843,Feline leukemia virus
    842,Equine arteritis virus
    838,Eastern equine encephalitis virus
    835,Simian foamy virus
    793,Porcine rotavirus
    765,Swine hepatitis E virus
    755,Influenza C virus
    714,Viral hemorrhagic septicemia virus
    700,Rift Valley fever virus
    688,Simian T-lymphotropic virus
    671,Crimean-Congo hemorrhagic fever virus
    665,Fowl adenovirus
    657,Seoul virus
    646,Bovine leukemia virus
    642,Puumala virus
    618,Torque teno sus virus
    615,Vesicular stomatitis virus
    598,Cowpox virus
    589,Banana bunchy top virus
    585,Rice stripe virus
    576,Plum pox virus
    574,Zucchini yellow mosaic virus
    556,Barley yellow dwarf virus
    548,SARS coronavirus
    534,Porcine epidemic diarrhea virus
    525,Beak and feather disease virus
    522,Emiliania huxleyi virus

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

    all flu : 200852
    A:190649
    B:9427
    C:755
    unidentified:21
    ---------------------------
    Flu-A segments:

    Code:
    18194,18265,18007,47478,18279,27837,23476,19113

1 ,5018, 320,7955,   4,  12, 263,1692,  12,  11,  54,2748, 105
2 ,1438, 321,   9,7667, 409,3597,4612,  15, 197
3 ,1576,3422, 307,3438,7418,  12, 215,1297, 274,  15,  33
4*,17195,366,18029,767,5342,1267,1160,102,2500,292,219,113,77,10,13,26
5 ,5488,   8, 209,  65, 152,4810,  27,7520
6*,14995,9306,563,145,188,1019,317,1029,275
7 , 834,8335,  41,  17,3891,10328,  30
8*,17346,1767
----------------------------------------
41,11573,4898,517, 205,   2
42, 143,  12,   3,  42,  11,  16,   3, 128,   8
43,13462,407, 269, 427,   1,3463
44, 571,  15, 166,  15
45,  30, 134, 442,   4,  11,  48,  69, 147,  20,4419,  18
46, 928, 192,  16,   5,  18,  12,  96
47, 411,  15,  24,  24,  10, 676
48, 102
49,   7, 424,1730,  32,  34, 114, 124,   7,  11,  17
4A, 212,   1,   3,   8,  66,   2
4B,  54,  13, 152
4C,  91,  22
4D,  10,  34,  33
4E,   9,   1
4F,  13
4G,   5,  16,   5

61,3149, 728,   9,  18, 488,7276, 145, 175,  33,2929,  30,  15
62,6184, 642, 151, 725, 322, 185, 904,   3, 190
63, 292, 244,  10,  13,   2,   2
64, 106,  22,  17
65,   1,  51,  10, 126
66, 567,  47, 388,   8,   9
67,   3,   6,  12,  74,  14, 182,  26
68, 700, 205, 124
69, 260,  15

81,4856,  10,  68,8571,2084,1753,   4
82, 403,1335,  15,  10,   4

---------------------------------------------------
    percent of nucleotides in viral genbank sequences:

    all,Newcastle,"Avian","Tomato","Potato"
    A:32.0,29.8,31.6,28.6,30.4
    C:20.4,22.9,20.2,19.0,19.9
    G:23.3,23.6,24.2,21.4,23.9
    T:24.2,23.7,24.0,29.9,25.7
    I'm interested in expert panflu damage estimates
    my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT
    Tags: None
  • #2
    Re: genbank statistics

    Graphical presentation of the 20 most sequenced viruses based on gsgs's data in post above.

    Click image for larger version Name: Genbank Viruses 04 2012.jpg Views: 1 Size: 63.4 KB ID: 659030

    Comment

    • #3
      Re: genbank statistics

      thanks. Maybe exclude the first big 5 to make another graph ?

      These names are not so uniform, I did cut them after "virus".
      E.g. Rotavirus and Human rotavirus are probably the same group.
      They also have Bovine,Porcine,Equine,Avian,Bovine group B,
      Simian,Canine,Murine,Lamb,Feline,Caprine,Rhesus,La pine,
      Rabbit,Adult diarrheal,Giant panda,Buffalo,Bovine group C,
      California sea lion,Bovine Rotavirus(capital R),Swine,
      Red squirrel, - rotavirus.
      So, swine is also Porcine and Bovine has sometimes the group specified.
      However, the great picture, the length of the bars in the graph
      should not be so much affected. The multi-naming usually happens
      with small counts.


      ~1000 names do not include "virus", they were omitted.
      They all have small counts.

      4432 virus-names were remaining
      61 of these had more than 999 sequences at genbank
      317 more than 99
      1181 more than 9


      most of these sequences are only partials. Flu is segmented into 8 segments, so one flu sequence
      is never longer than 2400 nucleotides (the whole genome is ~13100 nucleotides).
      E.g. RSV is not segmented, so some RSV sequences have length 15000, but most are
      just partials of ~700 nucleotides



      I may update my first post in this thread with new data
      I'm interested in expert panflu damage estimates
      my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

      Comment

      • #4
        Re: genbank statistics

        85 files of bacteria (gbbct) at genbank, 19GB uncompressed,
        ~800000 records, ~8B nucleotides

        all: A:24.2%,C:25.6%,G:26.1%,T:23.9%
        avium bacteria (avian): A:19.8%,C:30.1%,G:30.0%,T:19.9%



        most sequenced bacteria:
        Code:
        46323,  Escherichia coli
20346,  Helicobacter pylori
15134,  Bacillus
13565,  Listeria monocytogenes
13486,  Vibrio
13331,  Pseudomonas
13249,  bacterium
11046,  Neisseria meningitidis
11033,  Mycobacterium
09981,  Streptomyces
08615,  Streptococcus pneumoniae
07850,  Bradyrhizobium
07747,  Salmonella entericasu
07012,  Staphylococcus aureus
06620,  Borrelia burgdorferi
05808,  Bacillus subtilis
05547,  Vibrio cholerae
05139,  Clostridium perfringens
04547,  Bacillus cereus
04479,  Pseudomonas aeruginosa
04475,  Streptococcus mutans
04319,  Burkholderia
04308,  Ralstonia solanacearum
04065,  Chlamydia trachomatis
03992,  Streptococcus mitis
03873,  Haemophilus influenzae
03452,  Legionella pneumophila
03405,  Klebsiella pneumoniae
03335,  Rhizobium
03229,  Streptococcus pyogenes
03009,  Bacillus thuringiensis
02997,  Campylobacter jejuni
02969,  Pseudomonas syringae
02876,  Arthrobacter
        I'm interested in expert panflu damage estimates
        my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

        Comment

        • #5
          Re: genbank statistics

          2.18B of bacterial amino-acids at genbank
          0.42B of viral amino acids at genbank





          N:AAc K:AAa
          T:ACn
          R6:AGa S6:AGc
          I:ATc,ATA M:ATG

          Q:CAa H:CAc
          P:CCn
          R6:CGn
          L6:CTn

          E:GAa D:GAc
          A,GCn
          G:GGn
          V:GTn

          }3:TAa Y:TAc
          S6:TCn
          }3:TGA W:TGG C:TGc
          L6:TTa F:TTc



          hydrophobic:GAVLIMFWP
          hydrophilic:STCYNQ,DE,KRH


          |A* C* G* T*
          --+------------
          *A|KN QH ED }Y
          *C|TT PP AA SS
          *G|RS RR GG wC
          *T|Im LL VV LF



          Code:
             |a..g..c..t..
---+-----------+
.a.|KN ED QH }Y|
.g.|RS GG RR wC|
.c.|TT AA PP SS|
.t.|Im VV LL LF|
---+-----------+
    a   c
    g   t

          4f:G,R,T,A,P,S,V,L
          Attached Files
          I'm interested in expert panflu damage estimates
          my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

          Comment

          • #6
            Re: genbank statistics

            1162210 virus records at genbank
            695422 without immunodeficiency viruses
            494591 without HIV and flu
            323909 without HIV,flu,hepatitis

            sorting these 323909 nucleotide sequences by length (file gb-3.sns)
            deleting sequences that are less than 10% away from a previous sequence
            (counting common 12-subsequences) {think gb-3.sns 90 50 (24h)}
            leaves 149812 sequences (file gb-3.t10 , 276MB)
            -------------------
            deleting sequences that are less than 1% away from a previous sequence
            (counting common 12-subsequences) {think gb-3.sns 99 95 (3xh)}
            leaves 2xxxxx sequences (file gb-3.t01 , xxxMB)
            ---interrupted--- (too slow, takes >1week)
            I'm interested in expert panflu damage estimates
            my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

            Comment

            • #7
              Re: genbank statistics

              release 190.0 is out: ftp://ftp.ncbi.nih.gov/genbank/gbrel.txt

              the increase is less than average ("redoubles every 18 months")

              21 virus files gbvrl, (20) in release 189.0

              1193910 virus sequences (1162210)
              1.436GB nucleaotides (1.395)
              0.490GB amino acids (0.476GB)

              196783 Influenza A (190649)
              10232 Influenza B (9427)
              755 Influenza C (755)
              5 unidentified influenza (20)


              googling for this .... not found
              I'm interested in expert panflu damage estimates
              my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

              Comment

              • #8
                Re: genbank statistics

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

                release 191.0 is out: ftp://ftp.ncbi.nih.gov/genbank/gbrel.txt

                --------previous:--------------------------
                21 virus files gbvrl, (20) in release 189.0
                1193910 virus sequences (1162210)
                1.436GB nucleaotides (1.395)
                0.490GB amino acids (0.476GB)
                196783 Influenza A (190649)
                10232 Influenza B (9427)
                755 Influenza C (755)
                5 unidentified influenza (20)
                __________________

                156424033 loci, 143081765233 bases, from 156424033 reported sequences
                GSS Sequences (Part 1) 87101 loci, 63965498 bases, from 87101 reported sequences
                ...1805. gbvrl1.seq - Viral sequence entries, part 1. ... 1825. gbvrl9.seq gbvrl1-gbvrl21

                the 21 viral files:
                Code:
                total sizes in bytes:5056616391=249995862+249997531+249997456+249995796+196748139+249999515+249998362+249985287+249997221+249997976+223493200+249994824+249998100+249998623+249998854+155773879+249993876+249998098+249885152+249997360+230771280
number of entries:1228676=67819+72972+70178+68648+51283+48168+46998+61320+61020+66738+49390+62819+57371+63326+56728+36770+54785+59298+55608+54790+62647
number of nucleotides:1429464786=69199598+64641902+60497453+69687853+53659358+77535236+72885417+69810929+73308013+68567372+65674528+71064019+72799083+65125364+73407772+44669912+72424401+71187763+73671167+74370012+65277634
                homo sapiens:20031278 entries,16310774187 bases

                release,month,year,base pairs,entries
                3,Dec,1982,680338,606
                ...
                184,Jun,2011,129178292958,140482268
                185,Aug,2011,130671233801,142284608
                186,Oct,2011,132067413372,144458648
                187,Dec,2011,135117731375,146413798
                188,Feb,2012,137384889783,149819246
                189,Apr,2012,139266481398,151824421
                190,Jun,2012,141343240755,154130210
                191,Aug,2012,143081765233,156424033

                WGS:
                129,Apr,2002,692266338,172768
                ...
                190,Jun,2012,287577367116,82076779
                191,Aug,2012,308196411905,84020064

                GSS=Genome Survey Sequence
                WGS=Whole Genome Shotgun
                GenBank - Wikipedia
                http://en.wikipedia.org/wiki/GenBank



                214535 influenza entries
                (currently available at http://www.ncbi.nlm.nih.gov/genomes/...ph-select.cgi?
                these are not the number of flu-viruses from those 21 files at their end-of-date)
                331127905 bytes , names = 12181313 bytes
                A:203252+4+4+7+7,B:10117+23+3,C:766,equine:85,unid entified:264

                flugenome.org - types:
                ---:1
                1:5251,676,8781,19,48,514,1891,61,22,78,2935,394
                2:1453,427,243,8342,453,3904,4898,752,215
                3:1539,3599,368,3694,8291,31,673,1334,299,15,97
                41:12798,5513,3136,210,41
                42:131,9,3,97,37,29,4,175,22
                43:14224,1321,368,536,56,1137
                44:620,899,481,35
                45:132,136,413,50,9,56,75,158,20,4447,19
                46:970,287,19,5,18,55,98
                47:470,76,38,84,48,714
                48:436
                49:10,466,1747,33,35,115,142,8,30,264
                4A:221,1,71,344,168,90
                4B:56,14,176
                4C:139,22
                4D:67,36,49
                4E:32,322
                4F:15
                4G:36,17,5
                5:5751,29,389,70,155,5061,27,8232
                61:3248,855,8,249,502,8304,145,181,33,2947,35,15
                62:6891,661,146,742,334,148,929,3,627
                63:366,295,13,15,32,2
                64:106,39,17
                65:1,52,17,939
                66:589,54,405,8,14
                67:3,6,12,90,14,185,32
                68:1179,237,136
                6A:297,16
                7:1193,8368,41,17,4166,11577,30
                81:5021,14,73,9347,2228,1980,5
                82:428,1386,15,10,4

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

                googling for 143081765233 gives only one hit
                downloading ... done
                unpacking ... done
                unix-->windows crlf ... done
                records --> nucleotide-fasta ... done gbvrl.nuc, 1489M , 1228676 sequences
                records --> amino-acid-fasta ... done gbvrl.ami, 507M, 1228676 sequences
                I'm interested in expert panflu damage estimates
                my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

                Comment

                • #9
                  Re: genbank statistics

                  Code:
                  April,August,virus
-----------------------------------
459913 ,439744, Human immunodeficiency virus
207984 ,190649, Influenza A virus
123754 ,117618, Hepatitis C virus
042409 ,40356, Hepatitis B virus
023335 ,22960, Simian immunodeficiency virus
014038 ,13573, Rabies virus
013574 ,12727, Porcine reproductive and respiratory syndrome virus
013422 ,13126, Human herpesvirus
011263 ,10036, Norovirus
012034 ,11305, Dengue virus
010420 ,09427, Influenza B virus
009874 ,9119, Human papillomavirus
009617 ,8854, Rotavirus
008084 ,7621, Human enterovirus
008070 ,7648, Echovirus
007735 ,7090, Human rotavirus
007229 ,6701, Measles virus
006582 ,6127, Human coxsackievirus
005793 ,5515, Human rhinovirus
005723 ,5514, Newcastle disease virus
005262 ,5124, Human respiratory syncytial virus
005145 ,5096, Torque teno virus
004769 ,4639, Foot-and-mouth disease virus
004398 ,4195, Human metapneumovirus
004078 ,4037, GB virus
003797 ,3628, Human adenovirus
003689 ,3610, Human T-lymphotropic virus
003673 ,3645, JC polyomavirus
003498 ,3118, Human poliovirus
003349 ,3072, Infectious bronchitis virus
002800 ,2764, Bovine viral diarrhea virus
002610 ,2331, Citrus tristeza virus
002540 ,2480, Infectious bursal disease virus
002450 ,2442, Tomato spotted wilt virus
002394 ,2394, Feline immunodeficiency virus
002315 ,2302, West Nile virus
002140 ,2046, Porcine circovirus
002097 ,1749, Equine infectious anemia virus
002097 ,1903, BK polyomavirus
...
...
...

                  update on virus-frequencies at genbank

                  Code:
                  459913 ,Human immunodeficiency virus
207984 ,Influenza A virus
123754 ,Hepatitis C virus
042409 ,Hepatitis B virus
023335 ,Simian immunodeficiency virus
014038 ,Rabies virus
013574 ,Porcine reproductive and respiratory syndrome virus
013422 ,Human herpesvirus
012034 ,Dengue virus
011263 ,Norovirus
010420 ,Influenza B virus
009874 ,Human papillomavirus
009617 ,Rotavirus
008084 ,Human enterovirus
008070 ,Echovirus
007735 ,Human rotavirus
007229 ,Measles virus
006582 ,Human coxsackievirus
005848 ,Hepatitis E virus
005793 ,Human rhinovirus
005723 ,Newcastle disease virus
005262 ,Human respiratory syncytial virus
005202 ,Hepatitis A virus
005145 ,Torque teno virus
004769 ,Foot-and-mouth disease virus
004398 ,Human metapneumovirus
004078 ,GB virus
003797 ,Human adenovirus
003689 ,Human T-lymphotropic virus
003673 ,JC polyomavirus
003498 ,Human poliovirus
003349 ,Infectious bronchitis virus
002800 ,Bovine viral diarrhea virus
002610 ,Citrus tristeza virus
002540 ,Infectious bursal disease virus
002450 ,Tomato spotted wilt virus
002394 ,Feline immunodeficiency virus
002315 ,West Nile virus
002140 ,Porcine circovirus
002097 ,Equine infectious anemia virus
002097 ,BK polyomavirus
001941 ,Human bocavirus
001822 ,Japanese encephalitis virus
001794 ,Human astrovirus
001785 ,Human parechovirus
001774 ,Small ruminant lentivirus
001681 ,Bluetongue virus
001669 ,Potato virus
001497 ,Classical swine fever virus
001448 ,Human parvovirus
001383 ,Chikungunya virus
001355 ,Cucumber mosaic virus
001345 ,African swine fever virus
001336 ,Hepatitis delta virus
001305 ,Feline coronavirus
001227 ,Ovine progressive pneumonia virus
001218 ,Sapovirus
001191 ,Grapevine leafroll-associated virus
001174 ,Tick-borne encephalitis virus
001126 ,Bovine rotavirus
001058 ,Turnip mosaic virus
001031 ,Human coronavirus
001018 ,Gallid herpesvirus
001014 ,Canine parvovirus
001000 ,Mumps virus
000992 ,Rubella virus
000991 ,Canine distemper virus
000985 ,Human endogenous retrovirus
000965 ,Infectious salmon anemia virus
000933 ,Beet necrotic yellow vein virus
000864 ,Equid herpesvirus
000864 ,Buggy Creek virus
000850 ,Feline leukemia virus
000842 ,Equine arteritis virus
000840 ,Eastern equine encephalitis virus
000822 ,Simian foamy virus
000802 ,Rift Valley fever virus
000794 ,Porcine rotavirus
000776 ,Influenza C virus
000771 ,Swine hepatitis E virus
000769 ,Viral hemorrhagic septicemia virus
000756 ,Simian T-lymphotropic virus
000711 ,Torque teno sus virus
000690 ,Bovine leukemia virus
000675 ,Tomato yellow leaf curl virus
000674 ,Porcine epidemic diarrhea virus
000674 ,Crimean-Congo hemorrhagic fever virus
000673 ,Fowl adenovirus
000665 ,Seoul virus
000664 ,Deformed wing virus
000645 ,Puumala virus
000617 ,Vesicular stomatitis virus
000609 ,Rice stripe virus
000609 ,Banana bunchy top virus
000607 ,Zucchini yellow mosaic virus
000598 ,Cowpox virus
000594 ,Plum pox virus
000550 ,SARS coronavirus
000543 ,Beak and feather disease virus
000539 ,Papaya ringspot virus
000536 ,Peach latent mosaic viroid
000522 ,Emiliania huxleyi virus
000519 ,Human parainfluenza virus
000504 ,Pepino mosaic virus
000503 ,Suid herpesvirus
000501 ,Avian leukosis virus
000496 ,Stealth virus
000493 ,Feline calicivirus
000488 ,Maize streak virus
000485 ,Epizootic hemorrhagic disease virus
000483 ,Norwalk-like virus
000481 ,Bovine coronavirus
000480 ,Yellow fever virus
000479 ,Peste-des-petits-ruminants virus
000478 ,Caprine arthritis encephalitis virus
000474 ,Avian orthoreovirus
000461 ,Vaccinia virus
000447 ,Grapevine fanleaf virus
000446 ,Chicken anemia virus
000441 ,Norwalk virus
000440 ,Grapevine rupestris stem pitting-associated virus
000431 ,Turkey astrovirus
000422 ,Rice yellow mottle virus
000416 ,Wheat yellow mosaic virus
000416 ,Hantavirus
000412 ,European bat lyssavirus
000398 ,Respiratory syncytial virus
000396 ,Bovine herpesvirus
000391 ,Watermelon mosaic virus
000385 ,African horsesickness virus
000381 ,Infectious pancreatic necrosis virus
000380 ,Human calicivirus
000377 ,Canine coronavirus
000374 ,Ross River virus
000374 ,East African cassava mosaic virus
000361 ,Sugarcane mosaic virus
000361 ,Elephant endotheliotropic herpesvirus
000361 ,Cryphonectria hypovirus
000359 ,Rabbit hemorrhagic disease virus
000359 ,Murid herpesvirus
000359 ,Hop stunt viroid
000357 ,Chrysanthemum chlorotic mottle viroid
000348 ,Taura syndrome virus
000341 ,Infectious hematopoietic necrosis virus
000340 ,Orf virus
000340 ,Apple chlorotic leaf spot virus
000337 ,Sugarcane yellow leaf virus
000332 ,TTV-like mini virus
000326 ,Aleutian mink disease virus
000319 ,Shrimp white spot syndrome virus
000317 ,Myxoma virus
000312 ,Mammalian orthoreovirus
000311 ,Venezuelan equine encephalitis virus
000302 ,Prunus necrotic ringspot virus
000296 ,La Crosse virus
000291 ,Simian virus
000291 ,Akabane virus
000290 ,Sweet potato feathery mottle virus
000283 ,Variola virus
000283 ,Avian metapneumovirus
000281 ,St. Louis encephalitis virus
000278 ,Porcine endogenous retrovirus
000275 ,Lymphocytic choriomeningitis virus
000274 ,Lassa virus
000269 ,WU Polyomavirus
000268 ,Hantaan virus
000265 ,Cacao swollen shoot virus
000265 ,Borna disease virus
000264 ,Bovine respiratory syncytial virus
000263 ,Dobrava-Belgrade virus
000262 ,Potato spindle tuber viroid
000261 ,Human norovirus
000256 ,TT virus
000256 ,Duck hepatitis A virus
000248 ,Tomato yellow leaf curl virus-Mild
000244 ,Bean common mosaic virus
000242 ,Cucurbit yellow stunting disorder virus
000241 ,Border disease virus
000239 ,Soybean mosaic virus
000238 ,Ostreid herpesvirus
000237 ,Rice black streaked dwarf virus
000232 ,Murine leukemia virus
000231 ,Maize dwarf mosaic virus
000230 ,Citrus exocortis viroid
000228 ,Grapevine virus
000226 ,Citrus psorosis virus
000225 ,Porcine parvovirus
000223 ,Bat coronavirus
000221 ,Ambystoma tigrinum virus
000220 ,Apple stem grooving virus
000218 ,Oropouche virus
000216 ,Fig mosaic virus
000215 ,Porcine teschovirus
000214 ,African cassava mosaic virus
000213 ,Bovine papillomavirus
000212 ,Tobacco mosaic virus
000212 ,Spring viraemia of carp virus
000210 ,Ostreococcus tauri virus
000210 ,Equine rotavirus
000208 ,Drosophila obscura sigma virus
000205 ,Aichi virus
000204 ,Cyprinid herpesvirus
000202 ,Black queen cell virus
000201 ,Southern rice black-streaked dwarf virus
000201 ,Merkel cell polyomavirus
000198 ,Banana mild mosaic virus
000196 ,Cymbidium mosaic virus
000195 ,Soybean dwarf virus
000194 ,Murine norovirus
000193 ,Sindbis virus
000192 ,Pepper mild mottle virus
000192 ,Israeli acute paralysis virus
000190 ,Barley yellow dwarf virus-PAV
000189 ,Usutu virus
000189 ,Torque teno midi virus
000188 ,HIV-1 CRF01_AE
000187 ,Sacbrood virus
000186 ,Monkeypox virus
000185 ,Junin virus
000184 ,Bat astrovirus
000184 ,Andes virus
000183 ,Visna/maedi virus
000182 ,Jamestown Canyon virus
000180 ,Marburg marburgvirus
000179 ,Iris yellow spot virus
000178 ,Sugarcane streak mosaic virus
000178 ,Onion yellow dwarf virus
000178 ,Human cosavirus
000177 ,Swine vesicular disease virus
000177 ,Saffold virus
000175 ,Reovirus
000175 ,Macaca mulatta rhadinovirus
000174 ,Feline panleukopenia virus
000173 ,Citrus dwarfing viroid
000170 ,Psittacid herpesvirus
000170 ,Barley yellow dwarf virus-PAS
000169 ,Rous sarcoma virus
000168 ,Porcine kobuvirus
000167 ,Potato leafroll virus
000167 ,Dioscorea bacilliform virus
000166 ,Wheat dwarf virus
000165 ,Budgerigar fledgling disease polyomavirus
000162 ,Liao ning virus
000161 ,Tula virus
000161 ,Sweet potato virus
000160 ,Chrysanthemum virus
000159 ,Tomato yellow leaf curl Sardinia virus
000158 ,Tobacco streak virus
000154 ,SEN virus
000152 ,Tobacco mild green mosaic virus
000152 ,Porcine astrovirus
000151 ,Tobacco vein banding mosaic virus
000151 ,Sweet potato chlorotic stunt virus
000149 ,Anatid herpesvirus
000148 ,Blackberry yellow vein-associated virus
000148 ,Avian nephritis virus
000147 ,Vesicular stomatitis New Jersey virus
000147 ,HBV genotype C
000147 ,Bean yellow mosaic virus
000147 ,Avipoxvirus
000146 ,Astrovirus
000143 ,Garlic virus
000143 ,East African cassava mosaic Kenya virus
000143 ,Apple stem pitting virus
000142 ,Enterovirus
000140 ,Salmon pancreas disease virus
000140 ,Huaiyangshan virus
000140 ,Avian hepatitis E virus
000139 ,Murine hepatitis virus
000139 ,Macacine herpesvirus
000139 ,Goose parvovirus
000138 ,Avian bornavirus
000138 ,Alfalfa mosaic virus
000137 ,Powassan virus
000136 ,Cotton leaf curl virus
000135 ,Buffalopox virus
000134 ,Leek yellow stripe virus
000134 ,Infectious hypodermal and hematopoietic necrosis virus
000134 ,Adeno-associated virus
000133 ,Lettuce mosaic virus
000133 ,Encephalomyocarditis virus
000132 ,Bovine enteric calicivirus
000131 ,Tomato leaf curl New Delhi virus
000131 ,Mouse mammary tumor virus
000131 ,Human picobirnavirus
000130 ,African horse sickness virus
000129 ,Chatanga virus
000128 ,Mungbean yellow mosaic India virus
000128 ,Homalodisca vitripennis reovirus
000128 ,Cassava brown streak virus
000128 ,Banna virus
000128 ,Australian grapevine viroid
000127 ,Transmissible gastroenteritis virus
000127 ,Mandrillus sphinx foamy virus
000127 ,Bovine adenovirus
000126 ,Wheat streak mosaic virus
000126 ,Cherry leaf roll virus
000126 ,Alcelaphine herpesvirus
000124 ,HBV genotype B
000124 ,Avian rotavirus
000121 ,Dicentrarchus labrax betanodavirus
000120 ,Tomato mosaic virus
000120 ,Paramecium bursaria Chlorella virus
000120 ,Cucurbit aphid-borne yellows virus
000119 ,Toscana virus
000119 ,Potato yellow vein virus
000119 ,Betacoronavirus
000119 ,Barley yellow mosaic virus
000118 ,Chlorella virus
000117 ,Porcine enteric sapovirus
000117 ,Avian coronavirus
000116 ,Ustilago maydis virus
000116 ,Human klassevirus
000116 ,Ectromelia virus
000115 ,Tomato leaf curl China betasatellite
000114 ,Tomato torrado virus
000114 ,Sin Nombre virus
000114 ,Groundnut bud necrosis virus
000113 ,XMRV
000113 ,Ovine herpesvirus
000113 ,Drosophila melanogaster sigma virus
000113 ,Autographa californica MNPV
000113 ,Apple scar skin viroid
000112 ,Prune dwarf virus
000112 ,Molluscum contagiosum virus
000112 ,Apple mosaic virus
000111 ,untyped human enterovirus
000110 ,Kunjin virus
000110 ,Cotton leafroll dwarf virus
000110 ,Bombyx mori NPV
000109 ,Kobuvirus
000108 ,Kyasanur forest disease virus
000108 ,Banana streak virus
000106 ,Potato mop-top virus
000106 ,Glypta fumiferanae ichnovirus
000106 ,Fowlpox virus
000104 ,Phlebovirus
000104 ,Kenya bat coronavirus
000103 ,Sheeppox virus
000103 ,Acute bee paralysis virus
000102 ,Odontoglossum ringspot virus
000102 ,Machupo virus
000102 ,Culex flavivirus
000102 ,Chrysanthemum stunt viroid
000101 ,Squash vein yellowing virus
000101 ,Cosavirus
000101 ,Chicken astrovirus
000100 ,Bovine torovirus
000098 ,Saimiriine herpesvirus
000098 ,Gill-associated virus
000098 ,Bat Paramyxovirus
000097 ,Western equine encephalomyelitis virus
000097 ,Cherry virus
000096 ,Human hepatitis A virus
000095 ,Fibropapilloma-associated turtle herpesvirus
000094 ,Kashmir bee virus
000093 ,Rice tungro spherical virus
000093 ,Apple fruit crinkle viroid
000092 ,Cyclovirus
000092 ,Bamboo mosaic virus
000091 ,Spodoptera frugiperda MNPV
000091 ,Porcine torovirus
000091 ,Human mammary tumor virus
000091 ,Chronic bee paralysis virus
000090 ,Tomato leaf curl virus
000090 ,Simian retrovirus
000090 ,Sendai virus
000090 ,Chimpanzee polyomavirus
000090 ,Cache Valley virus
000089 ,Tobacco etch virus
000089 ,Simian adenovirus
000089 ,Peanut bud necrosis virus
000089 ,Dugbe virus
000088 ,Cotton leaf curl Multan betasatellite
000088 ,Autographa californica nucleopolyhedrovirus
000087 ,Lagos bat virus
000087 ,Chilli veinal mottle virus
000087 ,Beet western yellows virus
000086 ,Human calcivirus
000086 ,Hosta virus
000086 ,Avocado sunblotch viroid
000086 ,Araraquara virus
000085 ,Type 2 ruminant rhadinovirus
000085 ,Nipah virus
000085 ,Melon necrotic spot virus
000084 ,Tobacco rattle virus
000084 ,Red sea bream iridovirus
000084 ,Guanarito virus
000083 ,Woodchuck hepatitis virus
000083 ,Sweet potato leaf curl virus
000083 ,Pestivirus
000082 ,Trichoplusia ni SNPV
000082 ,Goatpox virus
000081 ,Papiine herpesvirus
000081 ,Musca domestica salivary gland hypertrophy virus
000081 ,Cucumber green mottle mosaic virus
000081 ,Cereal yellow dwarf virus
000081 ,Broad bean wilt virus
000080 ,Seewis virus
000080 ,Canid herpesvirus
000080 ,Camelpox virus
000080 ,Bat circovirus
000080 ,Avian paramyxovirus
000079 ,Small anellovirus
000078 ,Pepper golden mosaic virus
000078 ,Lily mottle virus
000077 ,Tomato yellow leaf curl China virus
000077 ,Tahyna virus
000077 ,Pear blister canker viroid
000077 ,Grapevine yellow speckle viroid 1
000077 ,Columnea latent viroid
000076 ,Porcine bocavirus
000076 ,KI polyomavirus
000076 ,Cauliflower mosaic virus
000075 ,Citrus leaf blotch virus
000074 ,Yam mosaic virus
000074 ,Rice gall dwarf virus
000074 ,Pseudocowpox virus
000074 ,Cotesia vestalis bracovirus
000074 ,Cotesia congregata bracovirus
000074 ,Capsicum chlorosis virus
000074 ,Bovine immunodeficiency virus
000073 ,Rice dwarf virus
000072 ,Rice grassy stunt virus
000072 ,Ovine lentivirus
000072 ,Carnation mottle virus
000072 ,Bat adenovirus
000071 ,Vesicular stomatitis Indiana virus
000071 ,Sri Lankan cassava mosaic virus
000071 ,Murray Valley encephalitis virus
000071 ,Helicoverpa armigera SNPV
000071 ,Cotton leaf curl Burewala virus
000071 ,Bovine kobuvirus
000071 ,Bovine enterovirus
000071 ,Barley yellow dwarf virus
000070 ,Zaire ebolavirus
000070 ,Mayaro virus
000070 ,Hop stunt viroid - citrus
000070 ,Bovine group B rotavirus
000070 ,Alphacoronavirus
000069 ,Pigeon paramyxovirus
000069 ,Eidolon helvum paramyxovirus
000069 ,Bocavirus
000068 ,Nairobi sheep disease virus
000068 ,HIV-1 M:B 2000_KC005
000067 ,Turkey coronavirus
000067 ,Tomato chlorosis virus
000067 ,Sorghum mosaic virus
000067 ,Rice ragged stunt virus
000067 ,Reticuloendotheliosis virus
000067 ,Hantaanvirus
000067 ,Bovine ephemeral fever virus
000066 ,Turnip yellows virus
000066 ,Tobacco leaf curl virus
000066 ,Australian bat lyssavirus
000065 ,Yam mild mosaic virus
000065 ,European mountain ash ringspot-associated virus
000064 ,Solenopsis invicta virus
000064 ,Porcine hokovirus
000064 ,Picobirnavirus
000064 ,Calicivirus
000064 ,Alkhumra hemorrhagic fever virus
000062 ,Porcine enterovirus
000061 ,Blueberry red ringspot virus
000060 ,Rinderpest virus
000060 ,Pirital virus
000060 ,Macrobrachium rosenbergii nodavirus
000060 ,Heterobasidion RNA virus
000060 ,Grapevine yellow speckle viroid 2
000060 ,Grapevine fleck virus
000060 ,Fiji disease virus
000060 ,Bhendi yellow vein mosaic virus
000059 ,Tomato yellow leaf curl Thailand virus
000059 ,Mosquito flavivirus
000059 ,Mokola virus
000059 ,Campoletis sonorensis ichnovirus
000058 ,Mirafiori lettuce big-vein virus
000058 ,HIV-1 M:B 93_KC005
000058 ,HIV-1 M:B 2003_KC005
000058 ,Barley yellow dwarf virus-GAV
000057 ,Tomato leaf curl Taiwan virus
000057 ,Rhesus macaque recovirus
000057 ,Beet black scorch virus
000057 ,Aino virus
000056 ,Tomato aspermy virus
000056 ,Lymphocystis disease virus
000056 ,Iberian fish nodavirus
000056 ,Hyposoter fugitivus ichnovirus
000056 ,Grass carp reovirus
000056 ,European brown hare syndrome virus
000056 ,Duck hepatitis B virus
000056 ,Avian reovirus
000056 ,Arabis mosaic virus
000055 ,Tomato ringspot virus
000055 ,Helicoverpa armigera NPV
000055 ,Cowpea aphid-borne mosaic virus
000054 ,Tobacco curly shoot virus
000054 ,Spodoptera litura NPV
000054 ,Rice tungro bacilliform virus
000054 ,Porcine picobirnavirus
000054 ,Impatiens necrotic spot virus
000054 ,Banana bract mosaic virus
000054 ,Antwerp rhinovirus
000053 ,San Miguel sea lion virus
000053 ,Middle Point orbivirus
000053 ,GBV-A-like agents
000053 ,Blackcurrant reversion virus
000052 ,Yellow head virus
000052 ,Strawberry mottle virus
000052 ,Soybean yellow mottle mosaic virus
000052 ,Lordsdale virus
000051 ,Watermelon bud necrosis virus
000051 ,Tomato bushy stunt virus
000051 ,Tobacco ringspot virus
000051 ,Polyomavirus
000051 ,Gossypium darwinii symptomless alphasatellite
000050 ,Peanut stunt virus
000050 ,Dasheen mosaic virus
000050 ,Cotton leaf curl betasatellite
000050 ,Beet soil-borne virus
000050 ,Bat adeno-associated virus
000050 ,Barley yellow dwarf virus-MAV
000050 ,Aedes aegypti Thai densovirus
000050 ,Acanthamoeba polyphaga mimivirus
...
...
...
                  I'm interested in expert panflu damage estimates
                  my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

                  Comment

                  • #10
                    Re: genbank statistics

                    September,12,2012 , flu-A , 204496 sequences

                    190x,0,0,17,0,0,0,0,0,0,0
                    191x,0,0,0,0,0,0,1,3,28,1
                    192x,0,0,0,0,1,1,0,13,0,0
                    193x,16,32,0,93,204,46,8,4,3,3
                    194x,10,0,21,31,0,11,19,39,25,47
                    195x,28,43,2,18,30,2,114,288,68,71
                    196x,37,48,25,133,48,94,128,165,594,124
                    197x,96,172,290,152,135,243,574,1233,717,696
                    198x,626,456,393,879,366,562,685,655,696,624
                    199x,449,926,718,1512,1716,1656,1707,2117,2361,420 4
                    200x,5299,5637,6874,9856,10118,14386,15389,19768,1 4081,50533
                    201x,13533,7542,1024
                    //,101
                    unkn,2
                    ---------------------------------------------
                    Hx,770,2,702,24,116,73,59,15,68,3,14,22,6,5,0,2
                    Nx,69,91,14,35,0,49,0,16,1
                    H10Nx,91,60,228,132,41,84,1299,151,45
                    H11Nx,75,262,114,11,14,96,13,61,1015
                    H12Nx,41,7,33,28,529,24,8,9,27
                    H13Nx,1,65,18,0,0,265,0,25,79
                    H14Nx,0,0,1,0,22,6,0,0,0
                    H15Nx,0,3,0,8,0,8,0,8,35
                    H16Nx,0,0,99,0,0,0,0,0,0
                    H1Nx,74453,3890,206,8,38,49,8,23,69
                    H2Nx,320,1329,1170,8,82,24,140,55,432
                    H3Nx,252,47055,139,22,91,1226,37,7277,25
                    H4Nx,48,345,84,54,66,3725,24,700,78
                    H5Nx,20706,3705,736,36,29,17,73,67,153
                    H6Nx,2544,3374,47,84,323,1263,4,653,71
                    H7Nx,755,2964,2091,112,25,211,820,76,122
                    H8Nx,0,3,9,646,2,0,2,8,0
                    H9Nx,119,9467,6,14,86,33,28,10,57
                    Mixed_Hx,1,1,9,10,0,2,0,1,0,1,0,0,0,0,0,0
                    Mixed_Nx,5,2,0,0,0,10,1,9,0
                    mixed_ Hx,1,6,1,0,0,0,0,0,0,0,0,0,0,0,0,0
                    mixed_ Nx,1,3,3,0,0,0,0,0,0
                    mixed_Hx,50,8,90,34,6,14,4,1,4,11,4,5,1,1,0,0
                    mixed_Nx,59,61,14,6,7,39,16,48,7
                    H17N10,24
                    H11N,1
                    H3N-,2
                    H4N4_8,2
                    H5N,2
                    H6N,5
                    H6N1_4,5
                    H7N2NSB,2
                    H9N,1
                    HIN2,1
                    Mixed,108
                    mixed,1289
                    unknown,21
                    -----------------------------------------------
                    Afghanistan,81
                    Algeria,12
                    Argentina,997
                    Australia,4833
                    Austria,428
                    Azerbaijan,34
                    Bahrain,5
                    Bangladesh,140
                    Barbados,4
                    Belarus,25
                    Belgium,249
                    Benin,1
                    Bhutan,32
                    Bolivia,28
                    Bosnia and Herzegovina,8
                    Brazil,548
                    Bulgaria,15
                    Burkina Faso,43
                    Cambodia,847
                    Cameroon,9
                    Canada,8290
                    Central African Republic,5
                    Chile,756
                    China,23679
                    Colombia,100
                    Cook Islands,2
                    Costa Rica,18
                    Cote dIvoire,49
                    Croatia,18
                    Cuba,148
                    Czech Republic,358
                    Czechoslovakia,1
                    Denmark,1209
                    Djibouti,8
                    Dominican Republic,152
                    Ecuador,65
                    Egypt,1415
                    El Salvador,75
                    Estonia,56
                    Ethiopia,16
                    Europe,1
                    Fiji,11
                    Finland,715
                    France,1279
                    French Guiana,3
                    French Polynesia,1
                    Gaza Strip,22
                    Georgia,15
                    Germany,2173
                    Ghana,16
                    Greece,959
                    Guadeloupe,1
                    Guam,290
                    Guatemala,197
                    Haiti,8
                    Honduras,40
                    Hong Kong,10790
                    Hungary,188
                    Iceland,7
                    India,1619
                    Indonesia,1933
                    Iran,590
                    Iraq,89
                    Ireland,138
                    Israel,780
                    Italy,3204
                    Jamaica,1
                    Japan,6437
                    Jordan,58
                    Kazakhstan,145
                    Kenya,511
                    Kosovo,1
                    Kuwait,141
                    Kyrgyzstan,62
                    Laos,431
                    Latvia,11
                    Lebanon,103
                    Libya,1
                    Lithuania,1
                    Luxembourg,125
                    Macau,31
                    Madagascar,3
                    Malaysia,2065
                    Mali,8
                    Mauritius,1
                    Mexico,2029
                    Middle East,7
                    Mongolia,574
                    Montenegro,1
                    Montserrat,3
                    Morocco,96
                    Myanmar,293
                    Nepal,70
                    Netherlands,2452
                    New Caledonia,70
                    New Zealand,5313
                    Nicaragua,2333
                    Niger,11
                    Nigeria,1147
                    North Korea,2
                    Northern Mariana Islands,19
                    Norway,365
                    Oman,3
                    Pakistan,443
                    Panama,101
                    Papua New Guinea,1
                    Paraguay,10
                    Peru,630
                    Philippines,218
                    Poland,181
                    Portugal,246
                    Puerto Rico,154
                    Qatar,24
                    Romania,190
                    Russia,2466
                    Saudi Arabia,138
                    Senegal,59
                    Serbia,90
                    Singapore,4943
                    Slovakia,37
                    Slovenia,41
                    Solomon Islands,13
                    South Africa,375
                    South Korea,4702
                    Spain,1956
                    Sri Lanka,7
                    Sudan,51
                    Sweden,1142
                    Switzerland,172
                    Taiwan,2935
                    Thailand,4759
                    Togo,1
                    Tonga,9
                    Trinidad and Tobago,8
                    Tunisia,15
                    Turkey,392
                    Turkmenistan,11
                    USA,69361
                    USSR,8
                    Uganda,446
                    Ukraine,78
                    United Arab Emirates,85
                    United Kingdom,7286
                    Uruguay,80
                    Uzbekistan,8
                    Venezuela,41
                    Viet Nam,5601
                    West Bank,2
                    Zambia,106
                    Zimbabwe,1
                    unknown,19
                    ------------------------------------------------------------
                    Avian,70561
                    Bat,24
                    Beetle,1
                    Blow fly,3
                    Camel,7
                    Canine,1289
                    Cat,52
                    Cheetah,11
                    Civet,8
                    Environment,2177
                    Equine,1813
                    Feline,1
                    Ferret,70
                    Giant anteater,4
                    Human,109005
                    Leopard,15
                    Mink,30
                    Muskrat,12
                    Pika,48
                    Raccoon dog,16
                    Seal,43
                    Stone marten,8
                    Swine,18982
                    Tiger,58
                    Unknown,244
                    Whale,5
                    -------------------------------------
                    1,19424
                    2,19416
                    3,19207
                    4,50962
                    5,19608
                    6,30106
                    7,25352
                    8,20421
                    ---------------------------------------------
                    1x ,5166,320,8746,4,12,271,1861,12,11,59,2849,115
                    2x ,1439,321,8,8376,383,3760,4901,15,215
                    3x ,1523,3614,308,3643,8194,14,227,1339,298,15,34
                    41x,13129,5395,3133,210,2
                    42x,131,9,3,98,37,29,4,173,17
                    43x,14157,437,282,452,1,1138
                    44x,591,15,171,15
                    45x,30,134,413,4,9,48,72,148,20,4453,18
                    46x,949,193,16,5,18,12,96
                    47x,475,15,24,23,10,684
                    48x,102
                    49x,7,473,1747,36,35,115,131,7,11,17
                    4Ax,216,1,3,8,81,2
                    4Bx,56,14,156
                    4Cx,92,22
                    4Dx,14,35,33
                    4Ex,9,1
                    4Fx,13
                    4Gx,5,17,5
                    5x ,5784,8,223,70,152,5084,27,8259
                    61x,3176,864,7,20,501,8317,145,184,33,2954,35,15
                    62x,6901,660,146,752,341,148,926,3,170
                    63x,332,295,10,14,2,2
                    64x,106,39,17
                    65x,1,52,10,128
                    66x,589,47,405,8,9
                    67x,3,6,12,90,14,186,31
                    68x,741,215,139
                    69x,287,15
                    7x ,1199,8398,41,17,4035,11630,30
                    81x,5052,10,73,9379,2247,1792,4
                    82x,445,1390,15,10,4


                    flu-B : 10217=583+584+592+4174+605+2131+610+938
                    flu-C : 770=90+88+88+167+96+0+118+123
                    H1N1v(2009)=Mx=46559=4414+4312+4258+10727+4428+783 2+5891+4697
                    segments from 12082 viruses (2012.09.14)
                    I'm interested in expert panflu damage estimates
                    my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

                    Comment

                    • #11
                      Re: genbank statistics

                      Close-of-data for the upcoming GenBank Release 192.0 occurred
                      Monday October 08 2012, at approximately 1:30am EDT.

                      -------------------
                      I'm planning to update this post later

                      ftp://ftp.ncbi.nih.gov/genbank/gbrel.txt
                      Release Date Base Pairs Entries
                      191 Aug 2012 143081765233 156424033
                      192 Oct 2012 145430961262 157889737

                      one google hit for genbank 157889737 ---- two now, but not this one
                      seems that google won't check the posts here for edited updates,
                      so I'll do a new post later


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

                      per genbank ftp : 211174 flu-A , 10507 flu-B , 774 flu-C



                      per gebnbank webpage:

                      207028=19606+19594+19402+ 19812 + 25822 +
                      (22183+501+16603+807+5418+1290+1232+102+2593+312+2 26+114+82+10+13+27)
                      +(16543+10279+658+162+192+1072+342+1096+302)+
                      (18763+1870) flu-A
                      10271=588+589+597+4182+610+2145+615+945 flu-B
                      770=90+88+88+167+96+118+123+0 flu-C


                      types a la flugenome.org (program typ192m.bas)
                      Code:
                       1 ,5147, 324,8824,   4,  12, 341,1877,  12,  11,  59,2880, 115
 2 ,1440, 324,   8,8451, 370,3763,5008,  15, 215
 3 ,1502,3616, 312,3684,8291,  14, 227,1339, 368,  15,  34
 5 ,5773,   8, 223,  70, 156,5208,  27,8347
 7 ,1281,8414,  41,  17,4040,11999, 30

41 ,13276,5515,3180,210,   2
42 , 131,   9,   3,  98,  37,  29,   4, 173,  17
43 ,14287,440, 282, 452,   1,1141
44 , 592,  15, 185,  15
45 ,  30, 134, 417,   4,   9,  48,  77, 151,  20,4510,  18
46 , 950, 193,  16,   5,  18,  12,  96
47 , 476,  15,  24,  23,  10, 684
48 , 102
49 ,   7, 488,1747,  36,  35, 115, 130,   7,  11,  17
4A , 216,   1,   3,   8,  82,   2
4B ,  56,  14, 156
4C ,  92,  22
4D ,  14,  35,  33
4E ,   9,   1
4F ,  13
4G ,   5,  17,   5

61 ,3184, 924,   7,  20, 501,8486, 145, 184,  33,3007,  36,  16
62 ,7126, 661, 151, 763, 349, 128, 928,   3, 170
63 , 334, 296,  10,  14,   2,   2
64 , 106,  39,  17
65 ,   1,  53,  10, 128
66 , 590,  47, 418,   8,   9
67 ,   3,   6,  12,  90,  14, 186,  31
68 , 741, 216, 139
69 , 287,  15

81 ,5033,  10,  73,9490,2327,1824,   6
82 , 451,1390,  15,  10,   4
                      I'm interested in expert panflu damage estimates
                      my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

                      Comment

                      • #12
                        Re: genbank statistics

                        just some keywords for searchengines:
                        genbank 157889737 release 192.0
                        VRL1 67289 69767191
                        249997497 gbvrl1.seq
                        1259170 virus records

                        -------edit-------OK, google has it now :-)

                        ================================================== ==
                        2013/08/31
                        278263 sequences
                        262922 flu-A + 82 equine H3N8 + 31 = 263035
                        14147 flu-B + 26 = 14173
                        790 flu-C
                        265 unidentified (all flu-A)

                        avian:24407+24379+24257+66652+24583+40532+32762+25 463 = 263035

                        A,human,127996
                        A,avian,96081
                        swine,25969


                        ================================================== ===
                        I'm interested in expert panflu damage estimates
                        my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

                        Comment

                        • #13
                          Re: genbank statistics

                          2013/12/17 , (time of release 199.0 , but the data are not from the
                          release but from the flu-page)

                          297014 flu-sequences , 273966 flu-A,21842 flu-B,802 flu-C,265 unspecified,83 E,27 I,12 S,17 s
                          27160,27126,27001,75973,27350,46972,36407,46972,36 407,29025 from the 8 segments

                          A:25472,25445,25316,68906,25640,42400,35652,26517
                          B:1597,1593,1595,6886,1611,4450,1626,2509
                          C:93,91,89,182,98,-,120,125
                          -:1

                          Human A:11084,11041,10959,35396,11598,23480,17554,11623
                          Swine A:2409,2436,2404,9081,2482,4701,4127,2492
                          Equine A:126,127,121,6154,133,150,164,190
                          Avian A:11242,11200,11184,16895,10829,13397,11903,11464

                          species:
                          Code:
                           155145,Human
  98120,Avian
  30160,Swine
   7257,Equine
   3036,Environment
   1483,Canine
   1033,Reassortant
    247,Unknown
     83,Cat
     78,Ferret
     69,Seal
     66,Tiger
     48,Pika
     46,Mink
     32,Bat
     16,Raccoon dog
     15,Leopard
     12,Muskrat
     11,Cheetah
      8,Wild boar
      8,Stone marten
      8,Civet
      7,Camel
      5,Whale
      4,Giant anteater
      3,Blow fly
      1,Feline
      1,Beetle
                          serotypes:
                          Code:
                            92835,H1N1
  62254,H3N2
  22719,H5N1
  15618,H3N8
  12137,H9N2
   7063,H1N2
   6651,H4N6
   4333,H5N2
   4156,H6N2
   3336,H10N7
   3165,mixed
   3009,H7N3
   3008,H6N1
   2975,H7N2
   1891,H11N9
   1562,H2N2
   1551,H2N3
   1535,H3N6
   1486,H7N7
   1368,H6N6
   1223,H6N8
   1003,H4N8
    975,H8N4
    899,H7N9
    838,H1
    830,H12N5
    814,H7N1
    789,H3
    783,H5N3
    732,H11N2
    489,H2N9
    488,H3N1
    444,H4N2
    405,H6N5
    380,H13N6
    354,H2N1
    320,H1N9
    296,H1N3
    285,H10N3
    269,H7N6
    258,H16N3
    254,H11N1
    211,H10N4
    209,H2N5
    194,mixedÞH3
    187,H5N9
    182,H4N9
    180,H2N7
    171,H10N8
    160,H11N3
    157,H10N1
    152,H5
    150,H3N3
    149,N1
    148,mixedÞN8
    138,N2
    136,H7N4
    136,H11N6
    132,H10N6
    129,H9N1
    124,mixedÞN2
    124,H7N8
    124,H10N2
    121,H13N9
    119,H4N3
    118,mixedÞN6
    118,mixedÞN1
    118,H11N8
    117,H3N7
    112,mixedÞH1
    111,H6N3
    108,Mixed
    107,mixedÞH4
    106,H9N9
    102,H9N5
    102,H10N5
    101,H10N9
     99,H6
     99,H3N5
     94,H6N4
     93,unknown
     91,H5N8
     90,H4N1
     88,H1N8
     87,H6N9
     86,H13N2
     84,N6
     81,H5N7
     80,H1N5
     76,H12
     74,H4N5
     69,H9
     69,H5N5
     69,H4N7
     68,H12N4
     64,H1N7
     62,mixedÞN7
     62,H4N4
     59,H7
     57,H3N9
     55,H2N8
     52,H11
     51,H12N1
     50,H1N6
     45,mixedÞH10
     45,H11N7
     44,H9N7
     44,H5N4
     43,H4
     43,H15N9
     42,mixedÞN3
     42,mixedÞH6
     40,H12N7
     38,H2N6
     36,H14N6
     35,N4
     34,H9N8
     33,H9N6
     33,H13N8
     33,H12N9
     33,H12N8
     33,H12N3
     32,H1N4
     32,H12N6
     31,mixedÞN9
     30,H14N5
     29,H11N5
     28,mixedÞH11
     25,H7N5
     24,H3N4
     24,H2N4
     24,H17N10
     22,mixedÞH7
     21,mixedÞN5
     20,H6N7
     20,H5N6
     18,N8
     18,H13N3
     16,H8
     15,mixedÞN4
     15,H14N8
     14,N3
     14,H9N4
     13,H9N3
     12,mixedÞH2
     11,N9
     11,H8N2
     11,H11N4
     10,MixedÞN6
     10,MixedÞH4
      9,MixedÞN8
      9,mixedÞH5
      9,MixedÞH3
      9,mixedÞH12
      9,H8N3
      8,mixedÞH9
      8,H8N8
      8,H18N11
      8,H16N9
      8,H15N8
      8,H15N6
      8,H15N4
      8,H14N2
      8,H12N2
      6,mixedÞ H2
      6,H13
      5,MixedÞN1
      5,H6N1Þ4
      5,H6N
      5,H14
      4,mixedÞH8
      3,N7
      3,mixedÞ N2
      3,H15N2
      3,H10
      2,MixedÞN2
      2,MixedÞH6
      2,mixedÞH13
      2,mixedÞ N3
      2,H8N7
      2,H8N5
      2,H7N2NSB
      2,H4N4Þ8
      2,H3N-
      2,H2
      2,H16
      1,MixedÞN7
      1,MixedÞH8
      1,MixedÞH2
      1,mixedÞH16
      1,mixedÞH14
      1,MixedÞH10
      1,MixedÞH1
      1,mixedÞ N1
      1,mixedÞ H3
      1,mixedÞ H1
      1,HIN2
      1,H9N
      1,H8N6
      1,H6N1ÞH6
      1,H5N
      1,H14N3
      1,H13N1
      1,H11N

                          countries:
                          Code:
                           107906,USA
  28971,China
  13399,Canada
  12169,Hong Kong
  11687,United Kingdom
  11292,Japan
  10585,Australia
   7067,New Zealand
   6898,Viet Nam
   6544,Taiwan
   6489,Singapore
   5636,Thailand
   5416,South Korea
   5278,LAB
   3701,Italy
   2820,Russia
   2819,Nicaragua
   2738,Malaysia
   2729,Mexico
   2707,Netherlands
   2401,Germany
   2311,Spain
   2222,India
   2110,Indonesia
   2060,Sweden
   1859,Finland
   1849,Egypt
   1709,France
   1336,Denmark
   1141,Brazil
   1140,Nigeria
   1123,Greece
   1083,Argentina
    989,Israel
    924,Cambodia
    807,Iran
    765,Chile
    753,Kenya
    741,Peru
    683,Bangladesh
    664,Mongolia
    648,Czech Republic
    500,Uganda
    492,Pakistan
    481,South Africa
    450,Austria
    442,Norway
    437,Laos
    398,Turkey
    391,Cuba
    364,Myanmar
    340,Portugal
    311,Guam
    304,Belgium
    282,Philippines
    239,Iceland
    234,Romania
    220,Poland
    197,Guatemala
    191,Switzerland
    179,Hungary
    172,Saudi Arabia
    170,Puerto Rico
    149,United Arab Emirates
    146,Morocco
    146,Ireland
    145,Kazakhstan
    139,Uruguay
    139,Colombia
    136,Nepal
    133,Kuwait
    128,Panama
    126,Luxembourg
    126,Dominican Republic
    122,Zambia
    121,Tunisia
    114,Lebanon
     89,unknown
     88,Estonia
     87,Ukraine
     85,Sri Lanka
     83,New Caledonia
     81,Iraq
     81,Afghanistan
     75,Ecuador
     67,El Salvador
     62,Serbia
     61,Senegal
     61,Georgia
     60,Kyrgyzstan
     60,Cameroon
     51,Sudan
     49,Cote dIvoire
     46,Venezuela
     44,Paraguay
     44,Jordan
     43,Burkina Faso
     41,Slovenia
     40,Honduras
     38,Cyprus
     37,Slovakia
     36,Macau
     34,Bhutan
     34,Azerbaijan
     26,Belarus
     25,Northern Mariana Islands
     24,Qatar
     23,Algeria
     22,Gaza Strip
     20,Ghana
     20,Djibouti
     19,Madagascar
     18,Croatia
     18,Costa Rica
     17,Bolivia
     15,Bulgaria
     13,USSR
     13,Solomon Islands
     13,Ethiopia
     13,Central African Republic
     12,Latvia
     12,Angola
     11,Oman
     11,Niger
     11,Fiji
     10,Turkmenistan
     10,Tanzania
      9,Tonga
      9,Korea
      8,Uzbekistan
      8,Trinidad and Tobago
      8,Bosnia and Herzegovina
      7,Middle East
      6,Zimbabwe
      6,Mauritius
      5,Bahrain
      4,Haiti
      4,Barbados
      3,Montserrat
      3,Mali
      3,French Guiana
      3,Cook Islands
      2,West Bank
      2,Papua New Guinea
      2,North Korea
      2,Mozambique
      1,Togo
      1,Montenegro
      1,Lithuania
      1,Libya
      1,Kosovo
      1,Jamaica
      1,Guadeloupe
      1,French Polynesia
      1,Europe
      1,Czechoslovakia
      1,Benin

                          years:
                          Code:
                              375,//
     17,1902
      1,1916
      3,1917
     28,1918
      1,1919
      1,1924
      8,1925
     21,1927
     16,1930
     40,1931
     68,1933
    224,1934
     62,1935
      8,1936
      4,1937
      3,1938
      3,1939
     61,1940
     29,1942
     40,1943
     11,1945
     27,1946
     43,1947
     25,1948
     55,1949
     54,1950
     51,1951
      2,1952
     27,1953
     43,1954
      2,1955
    138,1956
    344,1957
     68,1958
     74,1959
     45,1960
     56,1961
     27,1962
    159,1963
     62,1964
    102,1965
    164,1966
    194,1967
    618,1968
    135,1969
     98,1970
    180,1971
    310,1972
    184,1973
    155,1974
    246,1975
    644,1976
   1250,1977
    741,1978
    750,1979
    684,1980
    534,1981
    460,1982
    914,1983
    395,1984
    648,1985
    928,1986
    898,1987
    929,1988
    812,1989
    663,1990
   1092,1991
    880,1992
   4711,1993
   2216,1994
   2065,1995
   2145,1996
   2518,1997
   2890,1998
   4902,1999
   6164,2000
   6864,2001
   9182,2002
  13591,2003
  12170,2004
  17843,2005
  18475,2006
  24778,2007
  21409,2008
  63307,2009
  24996,2010
  18874,2011
  10957,2012
   6231,2013
   2760,NON/
     32,unkn

                          Code:
                          genbank, 2013/12/17 , flugenome.org - types , file gb199.t5

       A    B    C    D    E    F    G    H    I    J    K    L
---------------------------------------------------------------
1   6219, 757,12702, 31,  61,1183,2595,  88,  26, 131,3412, 797
2   1987, 541, 646,10610,581,6780,6088,2063, 219
3   1924,4206, 507,4441,11771, 32,1523,2201, 450,  19, 411
5   6714,  36, 670, 116, 188,6338,  31,12012
7   1844,10590, 58,  20,6414,15695, 31
81  5775,  20,118,12977,3016,2209,  7
82   544,2039,  15,  11,   4

41 16205,6679,3291, 494,  51
42   157,  13,   3, 113,  38,  29,   4, 268,  24
43 18294,2429, 638, 862,  64,6538
44  1113, 980, 670,  42, 144
45   200, 502,  55,  11,  58, 108, 185,  20,4759,  19,1307
46   304,  52,   9,  19,  56, 163
47   716,  80,  49, 274,  48, 878
48  1040
49    10, 648,2047,  57,  48, 119, 176,   9,  31, 921
4A   544,   1, 200, 991, 288, 138
4B   110,  39, 356
4C   193,  28
4D   156   44,  66
4E    44, 607
4F    16
4G    69,  28,  19

61  5372,1335,   8, 433, 797,10619,145, 228,  42,3377,  41,  16
62  10371,886, 184,1009, 476, 198,1105,   3, 718
63   566, 340,  14,  27,  37,  11
64   181,  47,  18
65     1,  74,  25,1755
66  1044,  61, 489,   9,  17
67     5,   6,  14, 196,  17, 506,  45
68  2498, 249, 188
69   641,  17


-------------------------------------------------------------------------
Human A
   5921,1A , 4847,1C ,  67,1G , 149,1K ,  77,1L ,
   1646,2A , 8852,2D , 227,2E , 300,2G ,
   1790,3A , 4102,3B , 234,3D ,4814,3E ,
  12809,41A, 5112,41B, 153,42A, 16809,43A, 22,43B, 423,45J, 41,47A,
   6372,5A ,  309,5F ,4906,5H ,
   5168,61A,   23,61B,9587,61F,  26,61G, 355,61J,
   7988,62A,   14,62B,  86,62C, 170,62F,  35,69A,
     40,7A ,10387,7B ,  37,7E ,7086,7F ,
   5691,81A, 5635,81D, 131,81E, 158,81F,

Swine:
     75,1A ,  310,1B , 1547,1C ,  398,1F ,   13,1G ,   66,1K ,
     17,2A ,  292,2B , 1617,2D ,   82,2E ,  412,2G ,
     13,3A ,   68,3B ,  302,3C ,   37,3D , 1584,3E ,  400,3I ,
   3322,41A,1302,41B , 3156,41C, 1191,43A,   12,43B,   26,45J,   61,49C,
    250,5A ,   37,5E ,  588,5F , 1596,5H ,
    27,61A , 1301 61B,965 61F,26 61J,  2261 62A,42 62B,39 62C,10 62D,13 62F,
   1761,7A ,   70,7B ,   16,7E , 2276,7F ,   71,81A,
   1994,81D,  390,81E,   30,81F,

equine:
    141,1C 
    136,2I 
    124,3G 
   6131,43F  25,47D
    136,5C 
     16,67E  143,68B
     17,7D   147,7E 
    185,81D

Avian North America
   5746,1C ,   34,1G ,   59,1J ,
     28,2B ,   18,2D ,   41,2E , 5767,2F ,   40,2G ,
     83,3D , 3728,3E , 2072,3H ,   33,3K ,
    468,41D, 29,42F, 233,42H, 20,43A, 61,43B, 461,43C, 754,43D, 1021,44A,
     30,45A, 165,45B, 397,45C, 342,46A, 41,46B,  48,46C, 161,46G, 706,47F,
    126,48A,  28,49D,  44,49E,  34,49G, 533,4AA,  21,4BB, 311,4BC, 143,4CA,
     28,4DA,  18,4GC,
     83,5D , 150,5F , 5121,5H ,
     33,61D, 744,61E,  18,62A, 289,62D, 939,62G, 487,63A, 169,64A, 194,65D,
   1010,66A,  29,66B, 506,67F,  41,67G,1207,68A, 363,69A,
     27,7A ,  52,7C ,5545,7E , 222,7F ,
     86,81C, 3563,81D, 78,81E,1876,82B,

Avian except North America
     59,1C , 2271,1G ,  34,1J , 2945,1K ,  26,1L ,
    114,2E ,   96,2F , 5074,2G ,
   3907,3D , 1257,3E ,   29,3H ,  36,3I ,
    114,41C, 105,42D, 37,42E, 373,43B, 239,44C, 32,45B, 52,45C, 48,45F,
    104,45G, 167,45H, 20,45I,4179,45J, 18,45K, 788,46A, 163,46B, 655,47A,
     24,47C,  22,48A, 617,49B,1959,49C,  22,49D, 117,49F, 127,49G, 18,49J,
    100,4AE, 106,4BA, 27,4CB, 27,4DB, 26,4DC, 17,4GB,
     21,5C ,  29,5D , 131,5E , 5086,5F ,  21,5G ,  158,5H ,
     26,61E,  26,61F, 117,61G, 223,61H, 42,61I, 2903,61J, 41,61K,
    812,62B,  53,62C, 655,62D, 442,62E,  35,62G, 175,62I, 337,63B,
     46,64B,  66,65B,  23,66B, 470,66C, 177,67D,  78,68A, 180,68C, 199,69A,
    119,7E , 5885,7F ,  25,7G ,
     29,81C, 1176,81D, 2315,81E, 1758,81F, 513,82A,  23,82B,
                          I'm interested in expert panflu damage estimates
                          my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

                          Comment

                          • #14
                            Re: genbank statistics

                            genbank,2014,02,16,release 200.0 , 7617+611+21 new sequences in the last 2 months

                            ******:58678=5131+5098+5154+13610+5421+10082+8705+ 5477 (typesz1:
                            flu-A:281583=26209+26179+26055+70282+26388+43756+35448 +27266
                            flu-B:22453=1597+1593+1595+7061+1611+4819+1629+2548
                            flu-C:823=96+94+93+185+102+124+129
                            A-human:137585
                            A-avian:99602
                            A-swine:31177
                            A-equine:7339
                            I'm interested in expert panflu damage estimates
                            my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

                            Comment

                            • #15
                              Re: genbank statistics

                              ftp://ftp.ncbi.nih.gov/genbank/gbrel.txt

                              Genetic Sequence Data Bank April 15 2014 NCBI-GenBank Flat File Release 201.0
                              BCT=133 files (+15) Bacterial
                              CON=246 files (+4) Constructed
                              ENV=069 files (+2) Environmental
                              EST=476 files (+1) expressed
                              GSS=285 files (+1) genome survey
                              MAM=009 files (+1) Other mammalian
                              PLN=068 files (+1)
                              VRL=031 files (+2)

                              199 Dec 2013 156230531562 169331407
                              200 Feb 2014 157943793171 171123749
                              201 Apr 2014 159813411760 171744486

                              199 Dec 2013 556764321498 133818570
                              200 Feb 2014 591378698544 139725795
                              201 Apr 2014 621015432437 143446790

                              319170 flu-sequences,292248 flu-A,25806 flu-B, 847 flu-C (269 unknown)
                              flu-A:105004 Avian, 7345 Equine, 141887 Human, 32016 Swine (5996 Other)
                              segments 1..8:27374,27343,27221,72151,27616,45192,36847,285 04
                              I'm interested in expert panflu damage estimates
                              my current links: http://bit.ly/hFI7H ILI-charts: http://bit.ly/CcRgT

                              Comment

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