COVID-19 Viral Genome Analysis Pipeline
Enabled by data from
Relative Frequency Change By Geographical Region
Last update: Nov 22, 2020
Spike 614Go to the tool and explanation |
| Download: Plots and data |
Continent
Onset |--Before-| Delay |--After--| Last Delta Fisher
Location Date G/(G+D) G+D Date G/(G+D) G+D Sample G/(G+D) p-val
Africa Mar 13 0.864 22 Mar 27 0.973 2588 Nov 2 0.11 0.021281
Asia Jan 28 0.009 344 Feb 11 0.671 8747 Nov 9 0.66 0.000000
Europe Jan 29 0.235 17 Feb 12 0.930 105571 Nov 29 0.70 0.000000
North-America Feb 28 0.051 99 Mar 13 0.903 34358 Oct 29 0.85 0.000000
Oceania Mar 4 0.059 51 Mar 18 0.927 10029 Nov 10 0.87 0.000000
South-America Mar 4 0.611 18 Mar 18 0.973 1330 Oct 9 0.36 0.000000
Country
Onset |--Before-| Delay |--After--| Last Delta Fisher
Location Date G/(G+D) G+D Date G/(G+D) G+D Sample G/(G+D) p-val
Australia Mar 6 0.070 57 Mar 20 0.943 9346 Nov 2 0.87 0.000000
Bahrain Apr 8 0.148 27 Apr 22 0.981 53 Oct 14 0.83 0.000000
Bangladesh May 10 0.952 62 May 24 0.996 282 Oct 18 0.04 0.019574
Brazil Mar 4 0.733 15 Mar 18 0.990 585 Aug 15 0.26 0.000049
Canada Mar 5 0.167 18 Mar 19 0.928 1874 Oct 3 0.76 0.000000
Chile Mar 10 0.450 20 Mar 24 0.990 98 Oct 9 0.54 0.000000
China Jan 28 0.011 272 Feb 11 0.230 278 Oct 7 0.22 0.000000
Colombia Mar 19 0.600 15 Apr 2 1.000 44 Jul 17 0.40 0.000111
Czech-Republic Mar 22 0.914 35 Apr 5 1.000 106 Oct 20 0.09 0.014312
DRC Mar 22 0.850 20 Apr 5 0.986 276 May 30 0.14 0.007806
Denmark Mar 9 0.922 245 Mar 23 0.988 8217 Nov 6 0.07 0.000000
Ecuador Apr 17 0.833 18 May 1 0.984 62 Sep 14 0.15 0.033923
Finland Mar 13 0.885 26 Mar 27 0.991 220 May 16 0.11 0.009157
France Feb 26 0.400 20 Mar 11 0.992 1454 Nov 2 0.59 0.000000
Germany Feb 27 0.667 15 Mar 12 0.940 500 Oct 6 0.27 0.001991
Hong-Kong Mar 13 0.021 141 Mar 27 0.938 272 Oct 11 0.92 0.000000
Iceland Mar 11 0.951 61 Mar 25 0.735 49 Mar 29 -0.22 0.002069
India Mar 10 0.429 21 Mar 24 0.790 2765 Sep 29 0.36 0.000334
Indonesia May 5 0.088 34 May 19 0.782 55 Sep 9 0.69 0.000000
Israel Mar 15 0.800 35 Mar 29 0.963 191 Sep 1 0.16 0.001840
Italy Feb 22 0.500 16 Mar 7 0.995 378 Oct 19 0.49 0.000000
Japan Mar 9 0.027 183 Mar 23 0.943 279 Oct 28 0.92 0.000000
Jordan Mar 23 0.733 15 Apr 6 0.990 200 Oct 3 0.26 0.000217
Kenya Apr 12 0.625 16 Apr 26 0.871 85 Jun 22 0.25 0.026581
Latvia Mar 25 0.800 25 Apr 8 1.000 168 Oct 13 0.20 0.000025
Lithuania Apr 6 0.182 22 Apr 20 0.977 86 Sep 12 0.79 0.000000
Malaysia Mar 25 0.070 43 Apr 8 0.273 33 Sep 1 0.20 0.024930
Mexico Mar 14 0.400 15 Mar 28 1.000 169 Aug 24 0.60 0.000000
Netherlands Feb 29 0.600 15 Mar 14 0.919 2513 Oct 30 0.32 0.000788
New-Zealand Mar 17 0.350 20 Mar 31 0.937 271 Nov 10 0.59 0.000000
Nigeria Apr 23 0.353 17 May 7 0.957 23 Jun 17 0.60 0.000052
Norway Mar 10 0.579 19 Mar 24 1.000 504 Oct 30 0.42 0.000000
Oman Mar 20 0.312 16 Apr 3 0.951 164 Jun 20 0.64 0.000000
Peru Mar 13 0.840 25 Mar 27 0.981 266 Aug 28 0.14 0.004028
Poland Mar 28 0.840 25 Apr 11 1.000 39 Sep 5 0.16 0.019909
Russia Mar 23 0.925 53 Apr 6 0.999 772 Sep 28 0.07 0.000073
Saudi-Arabia Mar 15 0.921 38 Mar 29 0.700 454 Aug 4 -0.22 0.002383
Senegal Mar 20 0.810 21 Apr 3 1.000 91 Jul 9 0.19 0.000964
Singapore Mar 10 0.050 80 Mar 24 0.189 755 Nov 2 0.14 0.000983
South-Africa Mar 25 0.667 15 Apr 8 0.997 1533 Oct 20 0.33 0.000000
South-Korea Mar 16 0.017 177 Mar 30 0.977 613 Aug 11 0.96 0.000000
Spain Feb 29 0.278 18 Mar 14 0.802 968 Sep 20 0.52 0.000003
Sweden Mar 3 0.692 26 Mar 17 0.984 514 Sep 27 0.29 0.000000
Switzerland Mar 10 0.959 74 Mar 24 0.994 1800 Oct 22 0.03 0.012710
Thailand Mar 3 0.081 37 Mar 17 0.507 69 Nov 9 0.43 0.000006
Turkey Mar 19 0.440 25 Apr 2 0.955 88 Jun 21 0.51 0.000000
USA Feb 29 0.049 123 Mar 14 0.907 31427 Oct 29 0.86 0.000000
United-Arab-Emirates Mar 12 0.189 37 Mar 26 0.715 193 Sep 25 0.53 0.000000
UK Feb 24 0.111 27 Mar 9 0.931 78604 Nov 29 0.82 0.000000
Subcountry
Onset |--Before-| Delay |--After--| Last Delta Fisher
Location Date G/(G+D) G+D Date G/(G+D) G+D Sample G/(G+D) p-val
Australia_NSW Mar 6 0.100 30 Mar 20 0.806 1037 Nov 2 0.71 0.000000
Australia_Queensland Mar 19 0.400 15 Apr 2 0.909 33 Aug 30 0.51 0.000415
Australia_South-Australia Mar 15 0.235 17 Mar 29 0.838 99 Oct 29 0.60 0.000002
Australia_Victoria Mar 10 0.130 23 Mar 24 0.990 7421 Oct 17 0.86 0.000000
Australia_Western-Australia Mar 14 0.167 18 Mar 28 0.886 184 Oct 24 0.72 0.000000
Austria_Vienna Mar 16 0.948 58 Mar 30 0.733 15 Apr 7 -0.21 0.029079
Bangladesh_Chittagong Jun 8 0.600 15 Jun 22 1.000 48 Jul 24 0.40 0.000074
Belgium_Liege Mar 15 0.650 20 Mar 29 0.973 408 Nov 2 0.32 0.000004
Brazil_Rio-de-Janeiro Mar 30 0.880 25 Apr 13 0.995 188 Jul 20 0.11 0.005338
Brazil_Sao-Paulo Mar 9 0.800 15 Mar 23 1.000 191 Aug 15 0.20 0.000317
Canada_Manitoba Mar 16 0.667 18 Mar 30 0.930 187 Aug 10 0.26 0.002603
Canada_Nova-Scotia Mar 19 0.750 16 Apr 2 1.000 170 Apr 28 0.25 0.000038
Canada_Ontario Mar 16 0.667 27 Mar 30 0.980 449 Oct 3 0.31 0.000000
Canada_Ontario_Toronto Mar 16 0.750 24 Mar 30 0.975 200 Aug 29 0.22 0.000262
Canada_Quebec Mar 11 0.600 15 Mar 25 0.951 369 Apr 19 0.35 0.000108
Chile_Region-Metropolitana-de-Santiago_Santiago Mar 10 0.471 17 Mar 24 0.978 46 Aug 26 0.51 0.000009
Denmark_Midtjylland Mar 9 0.870 23 Mar 23 1.000 1248 Nov 2 0.13 0.000005
Denmark_Nordjylland Mar 9 0.870 23 Mar 23 0.994 805 Nov 2 0.12 0.000960
Denmark_Sjaelland Mar 9 0.875 32 Mar 23 0.994 826 Nov 2 0.12 0.000177
Denmark_Syddanmark Mar 9 0.927 55 Mar 23 0.987 1290 Nov 2 0.06 0.008921
France_Auvergne-Rhone-Alpes Mar 11 0.933 45 Mar 25 1.000 180 Nov 2 0.07 0.007575
France_Ile-de-France Mar 11 0.500 18 Mar 25 1.000 65 Oct 22 0.50 0.000000
France_Occitanie Apr 21 0.921 38 May 5 1.000 74 Oct 19 0.08 0.037013
France_Provence-Alpes-Cote-d-Azur Mar 18 0.935 46 Apr 1 1.000 526 Oct 26 0.07 0.000489
Germany_North-Rhine-Westphalia Mar 10 0.211 19 Mar 24 0.968 249 Oct 6 0.76 0.000000
Germany_North-Rhine-Westphalia_Essen Mar 17 0.625 16 Mar 31 0.926 27 May 5 0.30 0.036913
Iceland_Reykjavik Mar 11 0.951 61 Mar 25 0.735 49 Mar 29 -0.22 0.002069
India_Delhi Mar 30 0.733 15 Apr 13 0.304 214 Aug 25 -0.43 0.001219
India_Gujarat Apr 26 0.867 30 May 10 0.963 463 Sep 3 0.10 0.032279
India_Haryana May 28 0.176 17 Jun 11 0.972 36 Aug 27 0.80 0.000000
India_Karnataka Apr 21 0.200 15 May 5 0.774 106 Jun 21 0.57 0.000024
India_Maharashtra Mar 23 0.400 15 Apr 6 0.955 447 Sep 29 0.56 0.000000
India_Telangana Mar 31 0.176 17 Apr 14 0.937 508 Sep 20 0.76 0.000000
India_Telangana_Hyderabad Apr 15 0.150 20 Apr 29 0.958 215 Sep 20 0.81 0.000000
India_Uttar-Pradesh Apr 2 0.467 15 Apr 16 0.853 34 Jun 27 0.39 0.011308
India_West-Bengal Mar 31 0.625 16 Apr 14 0.901 182 Sep 10 0.28 0.005955
Italy_Lazio Mar 15 0.467 15 Mar 29 1.000 68 Oct 19 0.53 0.000000
Japan_Aichi Apr 23 0.600 15 May 7 1.000 40 Oct 28 0.40 0.000173
Japan_Kanto Mar 9 0.083 36 Mar 23 0.954 87 May 14 0.87 0.000000
Jordan_Amman Mar 23 0.733 15 Apr 6 0.995 194 Oct 3 0.26 0.000085
Lithuania_Kauno-apskritis Jul 30 0.467 15 Aug 13 1.000 38 Sep 12 0.53 0.000007
Netherlands_Gelderland Mar 12 0.625 16 Mar 26 0.989 273 Oct 27 0.36 0.000001
Netherlands_Limburg Mar 20 0.467 15 Apr 3 0.946 92 Oct 21 0.48 0.000018
Netherlands_Noord-Brabant Mar 5 0.471 17 Mar 19 0.844 321 Oct 14 0.37 0.000658
Netherlands_Noord-Holland Mar 30 0.667 15 Apr 13 1.000 74 Oct 27 0.33 0.000072
Netherlands_Utrecht Mar 3 0.810 21 Mar 17 0.957 162 Oct 23 0.15 0.025082
Netherlands_Zuid-Holland Mar 6 0.778 18 Mar 20 0.984 695 Oct 30 0.21 0.000328
New-Zealand_Auckland Mar 20 0.350 20 Apr 3 0.977 87 Nov 8 0.63 0.000000
New-Zealand_Canterbury Mar 24 0.647 17 Apr 7 1.000 37 Nov 2 0.35 0.000479
Norway_Oslo Jul 24 0.667 15 Aug 7 1.000 48 Oct 29 0.33 0.000427
Oman_Muscat Mar 20 0.333 15 Apr 3 0.952 124 Jun 20 0.62 0.000000
Peru_Lima Mar 16 0.833 18 Mar 30 0.986 143 Aug 28 0.15 0.010312
Senegal_Dakar Apr 2 0.800 15 Apr 16 1.000 87 Jul 9 0.20 0.002650
South-Africa_KZN Jun 17 0.977 129 Jul 1 1.000 892 Oct 7 0.02 0.001976
South-Africa_Western-Cape Apr 3 0.667 15 Apr 17 1.000 75 Oct 11 0.33 0.000068
Spain_Andalucia Mar 12 0.136 22 Mar 26 0.704 27 Jul 14 0.57 0.000119
Spain_Basque-Country Mar 5 0.188 16 Mar 19 0.946 147 Sep 20 0.76 0.000000
Spain_Basque-Country_San-Sebastian Mar 28 0.647 17 Apr 11 1.000 86 Sep 20 0.35 0.000009
Spain_Com-Valenciana Mar 10 0.128 39 Mar 24 0.861 115 Jul 9 0.73 0.000000
Spain_Com-Valenciana_Castellon-de-la-Plana Mar 16 0.667 15 Mar 30 1.000 21 Jul 9 0.33 0.007966
Spain_Com-Valenciana_Valencia Mar 10 0.108 37 Mar 24 0.629 35 Apr 1 0.52 0.000005
Spain_Galicia Mar 11 0.438 16 Mar 25 0.944 18 Jul 21 0.51 0.001965
Spain_La-Rioja Mar 11 0.123 57 Mar 25 0.810 21 Apr 4 0.69 0.000000
Spain_La-Rioja_Logrono Mar 11 0.121 33 Mar 25 0.778 18 Apr 4 0.66 0.000005
Spain_Madrid Mar 6 0.500 16 Mar 20 0.841 220 Aug 24 0.34 0.002705
Sweden_Halland Mar 10 0.750 16 Mar 24 0.971 35 Sep 14 0.22 0.028977
Sweden_Stockholm Mar 3 0.773 22 Mar 17 1.000 76 Aug 14 0.23 0.000388
Sweden_Vastra-Gotaland Mar 25 0.529 17 Apr 8 1.000 74 Sep 7 0.47 0.000000
Switzerland_Basel-Land Mar 13 0.909 33 Mar 27 0.996 232 Oct 16 0.09 0.006506
Switzerland_Bern Mar 25 0.959 74 Apr 8 1.000 307 Oct 22 0.04 0.007088
Switzerland_Graubunden Mar 25 0.667 15 Apr 8 1.000 45 Oct 14 0.33 0.000550
Switzerland_Zurich Mar 11 0.842 19 Mar 25 1.000 335 Oct 22 0.16 0.000132
USA_Alaska Mar 23 0.625 16 Apr 6 0.992 133 Jul 24 0.37 0.000004
USA_CA Mar 7 0.075 40 Mar 21 0.921 4118 Oct 7 0.85 0.000000
USA_CA_Alameda Apr 12 0.222 18 Apr 26 1.000 197 Oct 4 0.78 0.000000
USA_CA_Humboldt Apr 1 0.810 21 Apr 15 0.992 131 Sep 8 0.18 0.001271
USA_CA_Los-Angeles Mar 17 0.600 15 Mar 31 0.926 188 Sep 2 0.33 0.001213
USA_CA_San-Diego Mar 12 0.353 17 Mar 26 0.993 1504 Sep 29 0.64 0.000000
USA_CA_San-Joaquin Mar 26 0.235 17 Apr 9 0.841 69 Sep 15 0.61 0.000004
USA_CA_Santa-Clara Mar 17 0.125 48 Mar 31 0.667 369 Oct 7 0.54 0.000000
USA_CA_Santa-Clara_PHD May 6 0.026 153 May 20 1.000 238 Oct 7 0.97 0.000000
USA_CA_Ventura Apr 1 0.812 16 Apr 15 1.000 52 Jun 28 0.19 0.011174
USA_Colorado Mar 16 0.583 24 Mar 30 1.000 90 Jun 29 0.42 0.000000
USA_Connecticut Mar 14 0.872 39 Mar 28 0.966 234 Aug 17 0.09 0.024927
USA_Florida Mar 9 0.533 15 Mar 23 0.939 1077 Oct 7 0.41 0.000019
USA_Georgia Mar 10 0.333 15 Mar 24 0.962 53 Sep 19 0.63 0.000001
USA_Illinois Mar 14 0.455 22 Mar 28 0.963 240 Sep 28 0.51 0.000000
USA_Illinois_Chicago Mar 17 0.400 15 Mar 31 0.966 147 Jul 26 0.57 0.000000
USA_Illinois_Winnebago Apr 14 0.824 17 Apr 28 1.000 39 Sep 28 0.18 0.024531
USA_Louisiana Mar 16 0.852 27 Mar 30 0.999 1241 Aug 26 0.15 0.000001
USA_Michigan Mar 13 0.917 48 Mar 27 0.995 1327 Oct 27 0.08 0.000361
USA_Minnesota Mar 11 0.353 17 Mar 25 0.882 1047 Oct 29 0.53 0.000001
USA_Nevada Mar 15 0.263 19 Mar 29 0.991 106 Jun 2 0.73 0.000000
USA_NY Mar 4 0.704 27 Mar 18 0.956 1657 Oct 18 0.25 0.000021
USA_NY_Nassau Mar 18 0.806 31 Apr 1 0.980 50 Oct 9 0.17 0.011343
USA_NY_NY Mar 9 0.697 33 Mar 23 0.979 423 Oct 18 0.28 0.000000
USA_NY_NY-City Mar 9 0.697 33 Mar 23 0.979 419 Oct 18 0.28 0.000000
USA_Oregon Mar 23 0.217 23 Apr 6 0.952 517 Aug 13 0.73 0.000000
USA_Oregon_WA Apr 17 0.667 15 May 1 0.994 156 Jul 30 0.33 0.000015
USA_Puerto-Rico Jun 29 0.800 15 Jul 13 1.000 30 Aug 12 0.20 0.032065
USA_South-Carolina Mar 20 0.200 15 Apr 3 0.966 177 Jul 21 0.77 0.000000
USA_Texas Mar 12 0.500 16 Mar 26 0.967 3562 Sep 10 0.47 0.000000
USA_Texas_Houston Mar 30 0.789 19 Apr 13 0.990 2452 Jul 7 0.20 0.000053
USA_Utah Mar 12 0.578 64 Mar 26 0.983 2244 Oct 12 0.40 0.000000
USA_Virginia Mar 11 0.524 21 Mar 25 0.978 1189 Oct 12 0.45 0.000000
USA_WA Mar 8 0.014 214 Mar 22 0.832 4041 Oct 5 0.82 0.000000
USA_WA_King Mar 8 0.029 103 Mar 22 0.872 298 Oct 5 0.84 0.000000
USA_WA_Pierce Apr 8 0.250 44 Apr 22 0.988 83 Jun 23 0.74 0.000000
USA_WA_Snohomish Mar 28 0.108 37 Apr 11 0.935 124 Jun 20 0.83 0.000000
USA_WA_Yakima Mar 25 0.375 32 Apr 8 0.829 1460 Jun 23 0.45 0.000000
USA_WI Mar 15 0.692 26 Mar 29 0.950 1650 Oct 3 0.26 0.000039
USA_WI_Dane Mar 20 0.706 17 Apr 3 0.994 805 Sep 28 0.29 0.000000
USA_WI_Milwaukee Mar 19 0.389 18 Apr 2 0.790 167 Sep 25 0.40 0.000624
USA_WI_Ozaukee Mar 27 0.176 17 Apr 10 1.000 15 Jun 27 0.82 0.000001
UK_England Feb 24 0.111 27 Mar 9 0.941 59989 Nov 29 0.83 0.000000
UK_England_ALDP May 5 0.916 107 May 19 0.998 13900 Oct 22 0.08 0.000000
UK_England_BIRM Mar 25 0.533 15 Apr 8 0.983 297 Oct 12 0.45 0.000000
UK_England_Cambridge Mar 4 0.667 21 Mar 18 0.853 5035 Oct 26 0.19 0.026377
UK_England_CWAR Apr 23 0.812 16 May 7 1.000 50 Jun 20 0.19 0.012238
UK_England_Exeter Mar 26 0.588 17 Apr 9 0.924 198 Oct 21 0.34 0.000448
UK_England_GSTT Mar 14 0.136 22 Mar 28 0.620 100 Mar 31 0.48 0.000036
UK_England_London Mar 13 0.625 16 Mar 27 0.891 860 Oct 28 0.27 0.005889
UK_England_MILK May 8 0.917 36 May 22 0.999 9508 Oct 27 0.08 0.000032
UK_England_Northampton Mar 12 0.600 20 Mar 26 0.863 1358 Nov 10 0.26 0.003703
UK_England_Norwich Apr 8 0.774 31 Apr 22 0.946 466 Oct 24 0.17 0.002050
UK_England_Nottingham Mar 14 0.143 21 Mar 28 0.881 1176 Nov 10 0.74 0.000000
UK_England_Oxford Mar 20 0.650 20 Apr 3 0.945 565 Sep 28 0.30 0.000116
UK_England_Portsmouth Mar 20 0.318 22 Apr 3 0.939 277 Oct 28 0.62 0.000000
UK_England_QEUH Jul 31 0.996 767 Aug 14 1.000 9756 Nov 5 0.00 0.010808
UK_England_Sheffield Mar 18 0.500 18 Apr 1 0.972 1207 Oct 30 0.47 0.000000
UK_Northern-Ireland Mar 17 0.250 16 Mar 31 0.975 1265 Oct 16 0.73 0.000000
UK_Scotland Mar 8 0.733 15 Mar 22 0.904 7731 Oct 27 0.17 0.048854
UK_Wales Mar 12 0.562 16 Mar 26 0.936 8648 Nov 3 0.37 0.000032
last modified: Mon Nov 2 09:08 2020
GISAID data provided on this website is subject to GISAID's Terms and Conditions
Questions or comments? Contact us at
seq-info@lanl.gov.
