COVID-19 Viral Genome Analysis Pipeline
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Relative Frequency Change By Geographical Region
Last update: Mar 4, 2021
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Continent
Onset |--Before-| Delay |--After--| Last Delta Fisher
Location Date Y/(Y+N) Y+N Date Y/(Y+N) Y+N Sample Y/(Y+N) p-val
Africa Oct 14 0.001 3764 Oct 28 0.249 1315 Feb 13 0.25 0.000000
Asia Nov 24 0.000 16382 Dec 8 0.224 2931 Feb 24 0.22 0.000000
Europe Sep 4 0.000 70437 Sep 18 0.385 265434 Feb 25 0.38 0.000000
North-America Aug 16 0.000 49476 Aug 30 0.025 67553 Feb 25 0.03 0.000000
Oceania Jun 12 0.002 2602 Jun 26 0.016 8907 Feb 25 0.01 0.000000
South-America Dec 17 0.001 4384 Dec 31 0.310 623 Feb 16 0.31 0.000000
Country
Onset |--Before-| Delay |--After--| Last Delta Fisher
Location Date Y/(Y+N) Y+N Date Y/(Y+N) Y+N Sample Y/(Y+N) p-val
Australia Jun 12 0.002 2240 Jun 26 0.011 8639 Feb 25 0.01 0.000008
Austria Dec 30 0.005 1185 Jan 13 0.661 115 Feb 2 0.66 0.000000
Belgium Nov 30 0.001 2499 Dec 14 0.436 3763 Feb 25 0.44 0.000000
Brazil Dec 17 0.003 1905 Dec 31 0.580 274 Feb 11 0.58 0.000000
Canada Nov 27 0.000 11161 Dec 11 0.037 1185 Jan 29 0.04 0.000000
Denmark Nov 9 0.000 11968 Nov 23 0.101 31660 Feb 15 0.10 0.000000
Finland Dec 19 0.004 1026 Jan 2 0.511 442 Feb 6 0.51 0.000000
France Dec 21 0.001 3633 Jan 4 0.546 1809 Feb 22 0.54 0.000000
Germany Dec 12 0.001 3101 Dec 26 0.178 589 Feb 16 0.18 0.000000
Ghana Dec 22 0.083 36 Jan 5 0.639 72 Jan 14 0.56 0.000000
Hong-Kong Dec 10 0.003 921 Dec 24 0.094 32 Jan 3 0.09 0.000644
Iceland Dec 20 0.001 3210 Jan 3 0.156 32 Jan 6 0.16 0.000000
India Dec 22 0.001 4480 Jan 5 0.075 67 Jan 31 0.07 0.000000
Ireland Dec 18 0.003 1343 Jan 1 0.737 1408 Feb 11 0.73 0.000000
Israel Dec 20 0.008 397 Jan 3 0.499 505 Jan 25 0.49 0.000000
Italy Dec 18 0.003 2388 Jan 1 0.563 1706 Feb 23 0.56 0.000000
Japan Jan 2 0.004 944 Jan 16 0.242 33 Feb 13 0.24 0.000000
Kenya Nov 9 0.014 288 Nov 23 0.062 64 Jan 28 0.05 0.039234
Luxembourg Dec 29 0.001 2839 Jan 12 0.195 77 Jan 20 0.19 0.000000
Mayotte Jan 12 0.078 77 Jan 26 0.278 54 Jan 31 0.20 0.003209
Netherlands Dec 9 0.001 4372 Dec 23 0.276 4509 Feb 16 0.28 0.000000
New-Zealand Dec 20 0.007 554 Jan 3 0.641 39 Feb 23 0.63 0.000000
Nigeria Dec 29 0.020 197 Jan 12 0.533 15 Jan 19 0.51 0.000000
North-Macedonia Jan 9 0.016 187 Jan 23 0.160 25 Feb 1 0.14 0.004204
Norway Dec 13 0.003 1048 Dec 27 0.265 313 Feb 17 0.26 0.000000
Poland Jan 12 0.008 393 Jan 26 0.341 270 Feb 23 0.33 0.000000
Portugal Dec 15 0.002 1734 Dec 29 0.206 588 Feb 10 0.20 0.000000
Romania Jan 13 0.020 196 Jan 27 0.955 22 Feb 3 0.93 0.000000
Singapore Dec 19 0.002 1476 Jan 2 0.252 214 Feb 24 0.25 0.000000
Slovakia Dec 22 0.053 76 Jan 5 0.732 82 Feb 18 0.68 0.000000
South-Africa Oct 20 0.002 1833 Nov 3 0.518 222 Jan 19 0.52 0.000000
South-Korea Dec 22 0.002 2023 Jan 5 0.078 205 Feb 13 0.08 0.000000
Spain Nov 8 0.002 2508 Nov 22 0.415 1818 Feb 16 0.41 0.000000
Sweden Dec 22 0.002 1353 Jan 5 0.355 670 Feb 21 0.35 0.000000
Switzerland Dec 18 0.001 4170 Jan 1 0.168 5077 Feb 18 0.17 0.000000
Turkey Dec 28 0.012 329 Jan 11 0.802 980 Feb 22 0.79 0.000000
USA Aug 16 0.000 42084 Aug 30 0.027 61083 Feb 25 0.03 0.000000
United-Arab-Emirates Nov 24 0.002 1764 Dec 8 0.397 63 Jan 20 0.40 0.000000
UK Sep 4 0.000 44730 Sep 18 0.507 175304 Feb 21 0.51 0.000000
Zambia Dec 1 0.018 164 Dec 15 0.931 29 Jan 18 0.91 0.000000
Subcountry
Onset |--Before-| Delay |--After--| Last Delta Fisher
Location Date Y/(Y+N) Y+N Date Y/(Y+N) Y+N Sample Y/(Y+N) p-val
Australia_NSW Dec 9 0.003 1448 Dec 23 0.237 97 Feb 25 0.23 0.000000
Belgium_Antwerp Dec 28 0.066 61 Jan 11 0.721 179 Feb 23 0.66 0.000000
Belgium_Antwerpen Dec 28 0.154 26 Jan 11 0.858 106 Feb 18 0.70 0.000000
Belgium_Brussels Jan 3 0.089 45 Jan 17 0.592 98 Feb 18 0.50 0.000000
Belgium_Ghent Jan 8 0.025 200 Jan 22 0.277 47 Feb 1 0.25 0.000000
Belgium_Hasselt Jan 16 0.125 24 Jan 30 0.451 91 Feb 23 0.33 0.004032
Belgium_Houthalen Jan 16 0.167 18 Jan 30 0.611 18 Feb 24 0.44 0.015260
Belgium_Leuven Nov 30 0.062 48 Dec 14 0.417 48 Feb 20 0.35 0.000074
Belgium_Liege Jan 14 0.003 1109 Jan 28 0.583 264 Feb 21 0.58 0.000000
Brazil_Amazonas Dec 17 0.033 183 Dec 31 0.921 63 Jan 29 0.89 0.000000
Brazil_Amazonas_Manaus Dec 18 0.034 118 Jan 1 0.918 49 Jan 29 0.88 0.000000
Brazil_Sao-Paulo Jan 4 0.005 587 Jan 18 0.482 83 Feb 11 0.48 0.000000
Canada_British-Columbia Nov 27 0.001 3974 Dec 11 0.006 508 Jan 29 0.01 0.022261
Denmark_Hovedstaden Nov 9 0.001 4715 Nov 23 0.086 14059 Feb 15 0.09 0.000000
Denmark_Midtjylland Dec 21 0.002 4515 Jan 4 0.241 1666 Feb 15 0.24 0.000000
Denmark_Nordjylland Nov 30 0.002 1860 Dec 14 0.059 2162 Feb 15 0.06 0.000000
Denmark_Sjaelland Dec 14 0.001 2444 Dec 28 0.200 2958 Feb 15 0.20 0.000000
Denmark_Syddanmark Dec 14 0.002 3541 Dec 28 0.241 2932 Feb 15 0.24 0.000000
Finland_Uusimaa Dec 19 0.004 991 Jan 2 0.512 441 Jan 26 0.51 0.000000
France_Bretagne Jan 2 0.015 205 Jan 16 0.340 53 Feb 15 0.32 0.000000
France_Centre Jan 13 0.104 48 Jan 27 0.382 34 Feb 15 0.28 0.005659
France_HdF Dec 26 0.035 86 Jan 9 0.500 92 Feb 16 0.47 0.000000
France_Ile-de-France Dec 23 0.004 844 Jan 6 0.806 485 Feb 16 0.80 0.000000
France_Ile-de-France_PARIS Jan 4 0.071 42 Jan 18 0.739 134 Feb 15 0.67 0.000000
France_Ile-de-France_Paris Jan 4 0.071 42 Jan 18 0.739 134 Feb 15 0.67 0.000000
France_Occitanie Dec 29 0.009 349 Jan 12 1.000 19 Jan 18 0.99 0.000000
France_Occitanie_Toulouse Dec 29 0.049 61 Jan 12 1.000 19 Jan 18 0.95 0.000000
France_Provence-Alpes-Cote-d-Azur Dec 23 0.003 883 Jan 6 0.609 69 Feb 11 0.61 0.000000
Germany_Saxony Jan 22 0.021 142 Feb 5 0.180 61 Feb 16 0.16 0.000146
Germany_Saxony-Anhalt Jan 25 0.029 105 Feb 8 0.157 51 Feb 16 0.13 0.005907
Iceland_Reykjavik Dec 20 0.001 3210 Jan 3 0.156 32 Jan 6 0.16 0.000000
India_Karnataka Dec 25 0.019 215 Jan 8 0.093 43 Jan 31 0.07 0.028424
Ireland_Cavan Dec 27 0.073 41 Jan 10 1.000 25 Feb 8 0.93 0.000000
Ireland_Cork Dec 27 0.048 63 Jan 10 0.456 79 Feb 3 0.41 0.000000
Ireland_Donegal Jan 11 0.125 24 Jan 25 0.833 36 Feb 3 0.71 0.000000
Ireland_Dublin Dec 20 0.010 497 Jan 3 0.763 438 Feb 11 0.75 0.000000
Ireland_Galway Jan 10 0.128 39 Jan 24 0.800 55 Feb 3 0.67 0.000000
Ireland_Kerry Dec 21 0.054 56 Jan 4 0.784 37 Feb 3 0.73 0.000000
Ireland_Kildare Jan 7 0.045 66 Jan 21 0.706 68 Feb 3 0.66 0.000000
Ireland_Louth Dec 27 0.039 103 Jan 10 0.655 58 Feb 10 0.62 0.000000
Ireland_Meath Jan 8 0.062 48 Jan 22 0.932 73 Feb 10 0.87 0.000000
Ireland_Wexford Dec 21 0.143 21 Jan 4 0.902 41 Feb 2 0.76 0.000000
Ireland_Wicklow Dec 31 0.044 91 Jan 14 0.667 36 Feb 3 0.62 0.000000
Israel_Jerusalem Dec 28 0.094 128 Jan 11 0.750 16 Jan 25 0.66 0.000000
Israel_Tel-Aviv Dec 28 0.033 91 Jan 11 0.579 19 Jan 25 0.55 0.000000
Italy_Abruzzo Dec 18 0.022 184 Jan 1 0.844 392 Feb 19 0.82 0.000000
Italy_Apulia Dec 21 0.009 333 Jan 4 0.806 67 Feb 5 0.80 0.000000
Italy_Apulia_Bari Dec 24 0.023 130 Jan 7 0.968 31 Feb 4 0.94 0.000000
Italy_Campania Dec 21 0.007 1119 Jan 4 0.489 792 Feb 23 0.48 0.000000
Italy_Lazio Dec 25 0.031 130 Jan 8 0.296 98 Feb 22 0.27 0.000000
Mayotte_MAMOUDZOU Jan 12 0.078 77 Jan 26 0.278 54 Jan 31 0.20 0.003209
Mayotte_Mamoudzou Jan 12 0.078 77 Jan 26 0.278 54 Jan 31 0.20 0.003209
Netherlands_Friesland Jan 3 0.032 155 Jan 17 0.514 105 Feb 8 0.48 0.000000
Netherlands_Gelderland Dec 24 0.005 568 Jan 7 0.224 304 Feb 14 0.22 0.000000
Netherlands_Groningen Dec 28 0.039 76 Jan 11 0.151 93 Feb 12 0.11 0.020150
Netherlands_Limburg Dec 28 0.006 529 Jan 11 0.160 194 Feb 12 0.15 0.000000
Netherlands_Noord-Brabant Dec 30 0.004 702 Jan 13 0.383 559 Feb 14 0.38 0.000000
Netherlands_Noord-Holland Dec 13 0.009 316 Dec 27 0.460 569 Feb 14 0.45 0.000000
Netherlands_Overijssel Jan 7 0.011 283 Jan 21 0.274 113 Feb 14 0.26 0.000000
Netherlands_Utrecht Dec 18 0.006 474 Jan 1 0.208 842 Feb 16 0.20 0.000000
Netherlands_Zeeland Dec 29 0.041 73 Jan 12 0.557 192 Feb 12 0.52 0.000000
Netherlands_Zuid-Holland Dec 13 0.003 1034 Dec 27 0.311 508 Feb 10 0.31 0.000000
Netherlands_Zuid-holland Dec 13 0.003 1034 Dec 27 0.311 508 Feb 10 0.31 0.000000
New-Zealand_Counties-Manukau Jan 1 0.058 52 Jan 15 0.875 16 Feb 23 0.82 0.000000
Norway_Oslo Dec 17 0.026 192 Dec 31 0.295 61 Feb 12 0.27 0.000000
Norway_Vestland Dec 22 0.070 71 Jan 5 0.706 17 Feb 12 0.64 0.000000
Norway_Viken Dec 24 0.011 274 Jan 7 0.287 87 Feb 17 0.28 0.000000
Poland_Pomorskie Jan 13 0.038 79 Jan 27 0.630 81 Feb 23 0.59 0.000000
Slovakia_Bratislava Jan 11 0.188 32 Jan 25 0.850 20 Feb 18 0.66 0.000003
South-Africa_Eastern-Cape Nov 4 0.176 17 Nov 18 1.000 37 Dec 9 0.82 0.000000
South-Africa_Western-Cape Oct 22 0.013 318 Nov 5 0.593 59 Jan 11 0.58 0.000000
Spain_Asturias Jan 3 0.040 75 Jan 17 0.577 71 Feb 13 0.54 0.000000
Spain_Balear-Islands_Palma-de-Mallorca Dec 30 0.034 88 Jan 13 0.500 82 Feb 12 0.47 0.000000
Spain_Castilla-La-Mancha Dec 21 0.120 25 Jan 4 0.625 16 Feb 2 0.51 0.001417
Spain_Castilla-y-Leon Dec 29 0.083 36 Jan 12 0.718 71 Jan 29 0.63 0.000000
Spain_Catalunya Jan 9 0.015 456 Jan 23 0.311 373 Feb 16 0.30 0.000000
Spain_Catalunya_Badalona Jan 15 0.029 103 Jan 29 0.394 33 Feb 3 0.36 0.000000
Spain_Com-Valenciana Nov 8 0.010 418 Nov 22 0.448 58 Jan 30 0.44 0.000000
Spain_Com-Valenciana_Valencia Nov 8 0.019 214 Nov 22 0.800 15 Jan 18 0.78 0.000000
Spain_Galicia Dec 26 0.060 84 Jan 9 0.667 18 Feb 1 0.61 0.000000
Spain_Madrid Dec 14 0.004 742 Dec 28 0.535 99 Feb 1 0.53 0.000000
Spain_Madrid_Madrid Dec 14 0.007 410 Dec 28 0.539 89 Jan 21 0.53 0.000000
Spain_Navarra Dec 30 0.075 40 Jan 13 0.583 60 Jan 26 0.51 0.000000
Sweden_Skane Jan 24 0.030 101 Feb 7 0.190 42 Feb 18 0.16 0.002556
Sweden_Stockholm Dec 23 0.009 330 Jan 6 0.408 49 Feb 10 0.40 0.000000
Sweden_Vasterbotten Jan 25 0.089 56 Feb 8 0.867 98 Feb 21 0.78 0.000000
Switzerland_Bern Dec 30 0.004 765 Jan 13 0.051 176 Feb 11 0.05 0.000031
Switzerland_Geneva Dec 26 0.022 137 Jan 9 0.484 890 Feb 18 0.46 0.000000
Switzerland_Geneve Jan 3 0.091 44 Jan 17 0.343 254 Jan 28 0.25 0.000594
Switzerland_Valais Jan 18 0.029 204 Feb 1 0.468 47 Feb 17 0.44 0.000000
Switzerland_Vaud Dec 24 0.007 413 Jan 7 0.217 152 Feb 15 0.21 0.000000
Switzerland_Wallis Jan 12 0.222 18 Jan 26 0.551 49 Feb 7 0.33 0.026041
Switzerland_Zurich Dec 28 0.005 642 Jan 11 0.073 478 Feb 11 0.07 0.000000
USA_Arizona Jan 7 0.001 3284 Jan 21 0.023 345 Feb 13 0.02 0.000002
USA_CA Dec 4 0.000 8663 Dec 18 0.044 3780 Feb 19 0.04 0.000000
USA_CA_Los-Angeles Jan 20 0.002 1329 Feb 3 0.200 20 Feb 19 0.20 0.000001
USA_CA_San-Diego Dec 29 0.002 2559 Jan 12 0.025 360 Jan 30 0.02 0.000003
USA_Colorado Jan 4 0.005 586 Jan 18 0.096 291 Feb 12 0.09 0.000000
USA_Connecticut Jan 6 0.004 676 Jan 20 0.077 78 Feb 8 0.07 0.000067
USA_Florida Dec 26 0.003 2007 Jan 9 0.200 1059 Feb 18 0.20 0.000000
USA_Georgia Dec 29 0.006 545 Jan 12 0.059 424 Feb 9 0.05 0.000001
USA_Illinois Jan 2 0.003 1010 Jan 16 0.171 240 Feb 8 0.17 0.000000
USA_Indiana Jan 4 0.008 378 Jan 18 0.056 160 Feb 11 0.05 0.001400
USA_Kentucky Jan 3 0.023 176 Jan 17 0.079 89 Feb 8 0.06 0.046954
USA_Louisiana Nov 27 0.002 1937 Dec 11 0.025 790 Feb 9 0.02 0.000000
USA_Maryland Jan 12 0.002 1216 Jan 26 0.157 426 Feb 24 0.15 0.000000
USA_Massachusetts Aug 31 0.003 1188 Sep 14 0.022 1288 Feb 9 0.02 0.000006
USA_Michigan Jan 11 0.002 3785 Jan 25 0.218 565 Feb 12 0.22 0.000000
USA_Minnesota Dec 28 0.001 2010 Jan 11 0.059 101 Feb 9 0.06 0.000001
USA_New-Jersey Jan 3 0.029 238 Jan 17 0.109 220 Feb 10 0.08 0.000695
USA_NY Dec 22 0.001 5570 Jan 5 0.073 3890 Feb 23 0.07 0.000000
USA_NY_NY Jan 4 0.002 2031 Jan 18 0.098 2276 Feb 23 0.10 0.000000
USA_NY_NY-City Jan 13 0.002 1483 Jan 27 0.107 1807 Feb 23 0.11 0.000000
USA_Ohio Jan 6 0.010 395 Jan 20 0.081 210 Feb 22 0.07 0.000013
USA_Pennsylvania Jan 10 0.005 591 Jan 24 0.083 218 Feb 10 0.08 0.000000
USA_Texas Nov 20 0.000 9751 Dec 4 0.024 5014 Feb 9 0.02 0.000000
USA_Utah Jan 12 0.001 4372 Jan 26 0.018 56 Feb 4 0.02 0.049652
USA_Virginia Jan 25 0.002 2321 Feb 8 0.174 23 Feb 19 0.17 0.000000
USA_WA Jan 16 0.000 6429 Jan 30 0.025 159 Feb 25 0.02 0.000011
USA_WA_King Jan 19 0.003 985 Feb 2 0.051 39 Feb 10 0.05 0.013150
USA_Wyoming Dec 28 0.006 544 Jan 11 0.034 536 Feb 16 0.03 0.000710
United-Arab-Emirates_Abu-Dhabi Nov 24 0.002 1551 Dec 8 0.397 63 Jan 20 0.39 0.000000
UK_England Sep 20 0.000 37689 Oct 4 0.566 144502 Feb 21 0.57 0.000000
UK_England_ALDP Nov 5 0.000 15587 Nov 19 0.743 31415 Feb 19 0.74 0.000000
UK_England_BIRM Dec 11 0.004 700 Dec 25 0.830 400 Feb 17 0.83 0.000000
UK_England_Bristol Dec 19 0.001 3045 Jan 2 0.857 42 Jan 31 0.86 0.000000
UK_England_Cambridge Nov 16 0.001 5703 Nov 30 0.740 1320 Feb 16 0.74 0.000000
UK_England_CAMC Oct 8 0.002 1720 Oct 22 0.694 22848 Feb 18 0.69 0.000000
UK_England_Exeter Dec 21 0.005 564 Jan 4 0.857 63 Feb 7 0.85 0.000000
UK_England_Liverpool Dec 12 0.001 2025 Dec 26 0.611 175 Feb 9 0.61 0.000000
UK_England_London Nov 10 0.003 1362 Nov 24 0.832 4132 Feb 18 0.83 0.000000
UK_England_MILK Sep 30 0.001 5409 Oct 14 0.662 28691 Feb 17 0.66 0.000000
UK_England_Northampton Dec 3 0.002 1929 Dec 17 0.613 1420 Feb 11 0.61 0.000000
UK_England_Norwich Nov 13 0.005 807 Nov 27 0.589 1394 Feb 12 0.58 0.000000
UK_England_Nottingham Dec 10 0.002 1715 Dec 24 0.612 536 Feb 16 0.61 0.000000
UK_England_Oxford Dec 4 0.004 734 Dec 18 0.808 1502 Feb 2 0.80 0.000000
UK_England_Portsmouth Nov 26 0.006 524 Dec 10 0.837 980 Feb 14 0.83 0.000000
UK_England_QEUH Oct 30 0.000 11897 Nov 13 0.621 14586 Feb 21 0.62 0.000000
UK_England_Sheffield Dec 11 0.002 1929 Dec 25 0.638 991 Feb 18 0.64 0.000000
UK_England_TFCI Nov 23 0.010 289 Dec 7 0.781 1605 Feb 16 0.77 0.000000
UK_Northern-Ireland Dec 29 0.003 1746 Jan 12 0.924 314 Feb 12 0.92 0.000000
UK_Scotland Nov 11 0.000 9103 Nov 25 0.620 4420 Feb 17 0.62 0.000000
UK_Wales Sep 18 0.001 5714 Oct 2 0.270 14732 Feb 18 0.27 0.000000
last modified: Tue Dec 22 17:31 2020
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