COVID-19 Viral Genome Analysis Pipeline
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Tables of mutating sites in Spike, updated daily
Last update: Sep 18, 2022
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Collection dates: 2022-03-22 - 2022-09-15
Table 1A. Table of sites with common mutations, found with a frequency of >0.003. (Within the ACE2 contact region, the frequency threshold for inclusion is lower, >0.001.)
Note: The mutation D614G is not included in this summary; it is now the globally dominant form and can be readily tracked using many other tools at this site.
# of seqs: 1,901,753
| ori | pos | mut | count | frequency |
|---|---|---|---|---|
| V | 3 | # | 4 | 0.0000021 |
| - | 4 | 0.0000021 | ||
| A | 52 | 0.0000273 | ||
| C | 1 | 0.0000005 | ||
| F | 19 | 0.0000100 | ||
| G | 53481 | 0.0281219 | ||
| I | 37 | 0.0000195 | ||
| S | 5 | 0.0000026 | ||
| X | 976 | 0.0005132 | ||
| L | 5 | - | 213 | 0.0001120 |
| F | 24207 | 0.0127288 | ||
| I | 89 | 0.0000468 | ||
| X | 1229 | 0.0006462 | ||
| Y | 6 | 0.0000032 | ||
| T | 19 | - | 10 | 0.0000053 |
| A | 5 | 0.0000026 | ||
| G | 1 | 0.0000005 | ||
| I | 1833008 | 0.9638518 | ||
| K | 12 | 0.0000063 | ||
| L | 1194 | 0.0006278 | ||
| M | 7 | 0.0000037 | ||
| P | 1 | 0.0000005 | ||
| R | 297 | 0.0001562 | ||
| V | 42 | 0.0000221 | ||
| X | 27879 | 0.0146596 | ||
| L | 24 | $ | 4 | 0.0000021 |
| - | 1835595 | 0.9652121 | ||
| F | 4005 | 0.0021060 | ||
| I | 1 | 0.0000005 | ||
| M | 1 | 0.0000005 | ||
| R | 3 | 0.0000016 | ||
| S | 1315 | 0.0006915 | ||
| X | 10607 | 0.0055775 | ||
| P | 25 | # | 8 | 0.0000042 |
| - | 1840721 | 0.9679075 | ||
| H | 7 | 0.0000037 | ||
| L | 24 | 0.0000126 | ||
| R | 2 | 0.0000011 | ||
| S | 27 | 0.0000142 | ||
| T | 22 | 0.0000116 | ||
| X | 11582 | 0.0060902 | ||
| Y | 2 | 0.0000011 | ||
| P | 26 | # | 6431 | 0.0033816 |
| - | 1829967 | 0.9622527 | ||
| A | 1 | 0.0000005 | ||
| C | 7 | 0.0000037 | ||
| D | 3 | 0.0000016 | ||
| F | 12 | 0.0000063 | ||
| H | 152 | 0.0000799 | ||
| I | 4000 | 0.0021033 | ||
| L | 41 | 0.0000216 | ||
| N | 5 | 0.0000026 | ||
| Q | 47 | 0.0000247 | ||
| R | 6 | 0.0000032 | ||
| S | 26 | 0.0000137 | ||
| T | 5 | 0.0000026 | ||
| X | 11503 | 0.0060486 | ||
| Y | 1 | 0.0000005 | ||
| A | 27 | # | 16 | 0.0000084 |
| - | 5029 | 0.0026444 | ||
| D | 27 | 0.0000142 | ||
| G | 1 | 0.0000005 | ||
| K | 2 | 0.0000011 | ||
| N | 1 | 0.0000005 | ||
| P | 10 | 0.0000053 | ||
| S | 1829824 | 0.9621775 | ||
| T | 6 | 0.0000032 | ||
| V | 15 | 0.0000079 | ||
| X | 17361 | 0.0091289 | ||
| W | 64 | # | 1 | 0.0000005 |
| $ | 1 | 0.0000005 | ||
| - | 1 | 0.0000005 | ||
| C | 168 | 0.0000883 | ||
| F | 1 | 0.0000005 | ||
| G | 2 | 0.0000011 | ||
| L | 1640 | 0.0008624 | ||
| R | 5603 | 0.0029462 | ||
| S | 4 | 0.0000021 | ||
| X | 247 | 0.0001299 | ||
| A | 67 | # | 1 | 0.0000005 |
| - | 8 | 0.0000042 | ||
| D | 14 | 0.0000074 | ||
| F | 5 | 0.0000026 | ||
| G | 1 | 0.0000005 | ||
| R | 1 | 0.0000005 | ||
| S | 248 | 0.0001304 | ||
| T | 35 | 0.0000184 | ||
| V | 36393 | 0.0191366 | ||
| X | 259 | 0.0001362 | ||
| I | 68 | # | 1159 | 0.0006094 |
| - | 167 | 0.0000878 | ||
| F | 35 | 0.0000184 | ||
| K | 133 | 0.0000699 | ||
| L | 48 | 0.0000252 | ||
| M | 75 | 0.0000394 | ||
| N | 9 | 0.0000047 | ||
| R | 336 | 0.0001767 | ||
| S | 6 | 0.0000032 | ||
| T | 12392 | 0.0065161 | ||
| V | 463 | 0.0002435 | ||
| X | 13083 | 0.0068794 | ||
| H | 69 | # | 350 | 0.0001840 |
| - | 847404 | 0.4455910 | ||
| D | 4 | 0.0000021 | ||
| L | 15 | 0.0000079 | ||
| N | 12 | 0.0000063 | ||
| P | 1 | 0.0000005 | ||
| Q | 2 | 0.0000011 | ||
| S | 2 | 0.0000011 | ||
| T | 106 | 0.0000557 | ||
| X | 11014 | 0.0057915 | ||
| Y | 410 | 0.0002156 | ||
| V | 70 | # | 2650 | 0.0013935 |
| - | 840925 | 0.4421841 | ||
| A | 356 | 0.0001872 | ||
| D | 1 | 0.0000005 | ||
| F | 149 | 0.0000783 | ||
| G | 29 | 0.0000152 | ||
| I | 304 | 0.0001599 | ||
| L | 3829 | 0.0020134 | ||
| T | 3 | 0.0000016 | ||
| W | 1 | 0.0000005 | ||
| X | 12322 | 0.0064793 | ||
| T | 76 | - | 11 | 0.0000058 |
| A | 18 | 0.0000095 | ||
| I | 41720 | 0.0219377 | ||
| N | 24 | 0.0000126 | ||
| S | 19 | 0.0000100 | ||
| V | 4 | 0.0000021 | ||
| X | 457 | 0.0002403 | ||
| T | 95 | A | 80 | 0.0000421 |
| I | 36105 | 0.0189851 | ||
| N | 23 | 0.0000121 | ||
| P | 3 | 0.0000016 | ||
| S | 72 | 0.0000379 | ||
| V | 6 | 0.0000032 | ||
| X | 5174 | 0.0027206 | ||
| G | 142 | - | 100 | 0.0000526 |
| A | 1 | 0.0000005 | ||
| D | 1873205 | 0.9849886 | ||
| E | 3 | 0.0000016 | ||
| L | 1 | 0.0000005 | ||
| N | 2 | 0.0000011 | ||
| P | 1 | 0.0000005 | ||
| T | 4 | 0.0000021 | ||
| V | 4 | 0.0000021 | ||
| X | 21505 | 0.0113080 | ||
| Y | 2 | 0.0000011 | ||
| V | 143 | # | 2 | 0.0000011 |
| - | 35222 | 0.0185208 | ||
| A | 1 | 0.0000005 | ||
| D | 9 | 0.0000047 | ||
| F | 9 | 0.0000047 | ||
| I | 27 | 0.0000142 | ||
| L | 3 | 0.0000016 | ||
| P | 5 | 0.0000026 | ||
| X | 605 | 0.0003181 | ||
| Y | 144 | # | 18 | 0.0000095 |
| $ | 2 | 0.0000011 | ||
| - | 43858 | 0.0230619 | ||
| C | 10 | 0.0000053 | ||
| D | 1 | 0.0000005 | ||
| F | 1 | 0.0000005 | ||
| H | 23 | 0.0000121 | ||
| P | 2 | 0.0000011 | ||
| Q | 1 | 0.0000005 | ||
| S | 6 | 0.0000032 | ||
| T | 4 | 0.0000021 | ||
| X | 1146 | 0.0006026 | ||
| Y | 145 | # | 5 | 0.0000026 |
| - | 35103 | 0.0184582 | ||
| C | 10 | 0.0000053 | ||
| D | 23 | 0.0000121 | ||
| F | 4 | 0.0000021 | ||
| H | 419 | 0.0002203 | ||
| K | 1 | 0.0000005 | ||
| N | 33 | 0.0000174 | ||
| Q | 5 | 0.0000026 | ||
| S | 1 | 0.0000005 | ||
| V | 5 | 0.0000026 | ||
| X | 657 | 0.0003455 | ||
| F | 157 | - | 306 | 0.0001609 |
| C | 7 | 0.0000037 | ||
| L | 7172 | 0.0037713 | ||
| S | 1326 | 0.0006973 | ||
| V | 4 | 0.0000021 | ||
| X | 203 | 0.0001067 | ||
| Y | 3 | 0.0000016 | ||
| N | 164 | # | 2 | 0.0000011 |
| H | 187 | 0.0000983 | ||
| I | 18 | 0.0000095 | ||
| K | 14602 | 0.0076782 | ||
| S | 59 | 0.0000310 | ||
| T | 108 | 0.0000568 | ||
| X | 128 | 0.0000673 | ||
| Y | 13 | 0.0000068 | ||
| N | 211 | # | 8 | 0.0000042 |
| $ | 1 | 0.0000005 | ||
| - | 35936 | 0.0188962 | ||
| D | 99 | 0.0000521 | ||
| G | 212 | 0.0001115 | ||
| H | 5 | 0.0000026 | ||
| I | 22 | 0.0000116 | ||
| K | 85 | 0.0000447 | ||
| S | 66 | 0.0000347 | ||
| T | 12 | 0.0000063 | ||
| V | 2 | 0.0000011 | ||
| X | 515 | 0.0002708 | ||
| Y | 12 | 0.0000063 | ||
| L | 212 | $ | 9 | 0.0000047 |
| - | 117 | 0.0000615 | ||
| C | 30 | 0.0000158 | ||
| F | 77 | 0.0000405 | ||
| G | 20 | 0.0000105 | ||
| I | 35831 | 0.0188410 | ||
| P | 2 | 0.0000011 | ||
| R | 1 | 0.0000005 | ||
| S | 4696 | 0.0024693 | ||
| T | 3 | 0.0000016 | ||
| V | 1 | 0.0000005 | ||
| X | 658 | 0.0003460 | ||
| V | 213 | # | 4 | 0.0000021 |
| - | 50 | 0.0000263 | ||
| A | 8 | 0.0000042 | ||
| D | 2 | 0.0000011 | ||
| E | 1351 | 0.0007104 | ||
| G | 1861700 | 0.9789389 | ||
| L | 12 | 0.0000063 | ||
| R | 61 | 0.0000321 | ||
| S | 17 | 0.0000089 | ||
| T | 2 | 0.0000011 | ||
| W | 49 | 0.0000258 | ||
| X | 1154 | 0.0006068 | ||
| Y | 248 | $ | 1 | 0.0000005 |
| - | 39 | 0.0000205 | ||
| C | 6 | 0.0000032 | ||
| D | 286 | 0.0001504 | ||
| F | 2 | 0.0000011 | ||
| H | 2781 | 0.0014623 | ||
| N | 4506 | 0.0023694 | ||
| S | 4606 | 0.0024220 | ||
| X | 205 | 0.0001078 | ||
| S | 255 | # | 1 | 0.0000005 |
| - | 4 | 0.0000021 | ||
| A | 13 | 0.0000068 | ||
| C | 2 | 0.0000011 | ||
| F | 5820 | 0.0030603 | ||
| P | 90 | 0.0000473 | ||
| T | 6 | 0.0000032 | ||
| X | 256 | 0.0001346 | ||
| Y | 22 | 0.0000116 | ||
| V | 289 | I | 5738 | 0.0030172 |
| L | 78 | 0.0000410 | ||
| X | 301 | 0.0001583 | ||
| G | 339 | - | 2 | 0.0000011 |
| A | 32 | 0.0000168 | ||
| D | 1885276 | 0.9913359 | ||
| E | 27 | 0.0000142 | ||
| H | 3177 | 0.0016706 | ||
| N | 8448 | 0.0044422 | ||
| Q | 1 | 0.0000005 | ||
| S | 2 | 0.0000011 | ||
| V | 27 | 0.0000142 | ||
| X | 1116 | 0.0005868 | ||
| Y | 232 | 0.0001220 | ||
| R | 346 | $ | 1 | 0.0000005 |
| - | 1 | 0.0000005 | ||
| E | 6 | 0.0000032 | ||
| G | 11 | 0.0000058 | ||
| I | 2549 | 0.0013403 | ||
| K | 31241 | 0.0164275 | ||
| S | 1754 | 0.0009223 | ||
| T | 35027 | 0.0184183 | ||
| X | 1632 | 0.0008582 | ||
| S | 371 | F | 1833291 | 0.9640006 |
| I | 2 | 0.0000011 | ||
| L | 35524 | 0.0186796 | ||
| P | 2 | 0.0000011 | ||
| V | 2 | 0.0000011 | ||
| X | 23456 | 0.0123339 | ||
| Y | 1187 | 0.0006242 | ||
| S | 373 | - | 1 | 0.0000005 |
| A | 1 | 0.0000005 | ||
| L | 1 | 0.0000005 | ||
| P | 1896103 | 0.9970291 | ||
| X | 1231 | 0.0006473 | ||
| S | 375 | # | 4 | 0.0000021 |
| - | 14 | 0.0000074 | ||
| C | 2 | 0.0000011 | ||
| F | 1893680 | 0.9957550 | ||
| X | 2689 | 0.0014140 | ||
| Y | 12 | 0.0000063 | ||
| T | 376 | # | 1 | 0.0000005 |
| - | 14 | 0.0000074 | ||
| A | 1857565 | 0.9767646 | ||
| I | 1 | 0.0000005 | ||
| N | 2 | 0.0000011 | ||
| S | 29 | 0.0000152 | ||
| V | 18 | 0.0000095 | ||
| X | 2903 | 0.0015265 | ||
| D | 405 | H | 5 | 0.0000026 |
| N | 1856345 | 0.9761231 | ||
| S | 6 | 0.0000032 | ||
| X | 1449 | 0.0007619 | ||
| R | 408 | C | 1 | 0.0000005 |
| G | 7 | 0.0000037 | ||
| N | 20 | 0.0000105 | ||
| S | 1790679 | 0.9415939 | ||
| T | 1 | 0.0000005 | ||
| X | 38964 | 0.0204885 | ||
| K | 417 | A | 1 | 0.0000005 |
| D | 1 | 0.0000005 | ||
| H | 11 | 0.0000058 | ||
| I | 456 | 0.0002398 | ||
| N | 1830074 | 0.9623090 | ||
| S | 22 | 0.0000116 | ||
| T | 17112 | 0.0089980 | ||
| X | 34934 | 0.0183694 | ||
| Y | 7 | 0.0000037 | ||
| N | 440 | # | 3 | 0.0000016 |
| - | 1 | 0.0000005 | ||
| K | 1789208 | 0.9408204 | ||
| R | 49 | 0.0000258 | ||
| X | 50839 | 0.0267327 | ||
| K | 444 | E | 23 | 0.0000121 |
| H | 1 | 0.0000005 | ||
| L | 1 | 0.0000005 | ||
| M | 526 | 0.0002766 | ||
| N | 2576 | 0.0013545 | ||
| Q | 15 | 0.0000079 | ||
| R | 1916 | 0.0010075 | ||
| S | 3 | 0.0000016 | ||
| T | 1141 | 0.0006000 | ||
| X | 482 | 0.0002535 | ||
| G | 446 | - | 2 | 0.0000011 |
| A | 7 | 0.0000037 | ||
| D | 456 | 0.0002398 | ||
| F | 1 | 0.0000005 | ||
| H | 1 | 0.0000005 | ||
| I | 5 | 0.0000026 | ||
| N | 9 | 0.0000047 | ||
| R | 22 | 0.0000116 | ||
| S | 39432 | 0.0207346 | ||
| T | 9 | 0.0000047 | ||
| V | 172 | 0.0000904 | ||
| X | 6036 | 0.0031739 | ||
| L | 452 | H | 2 | 0.0000011 |
| K | 8 | 0.0000042 | ||
| M | 14549 | 0.0076503 | ||
| Q | 218149 | 0.1147094 | ||
| R | 814665 | 0.4283758 | ||
| V | 1 | 0.0000005 | ||
| W | 3 | 0.0000016 | ||
| X | 3091 | 0.0016253 | ||
| S | 477 | - | 1 | 0.0000005 |
| D | 32 | 0.0000168 | ||
| I | 7 | 0.0000037 | ||
| K | 66 | 0.0000347 | ||
| N | 1896885 | 0.9974403 | ||
| R | 2 | 0.0000011 | ||
| T | 1 | 0.0000005 | ||
| X | 1449 | 0.0007619 | ||
| Y | 2 | 0.0000011 | ||
| T | 478 | - | 1 | 0.0000005 |
| E | 147 | 0.0000773 | ||
| G | 1 | 0.0000005 | ||
| I | 34 | 0.0000179 | ||
| K | 1897053 | 0.9975286 | ||
| N | 15 | 0.0000079 | ||
| Q | 10 | 0.0000053 | ||
| R | 550 | 0.0002892 | ||
| X | 1422 | 0.0007477 | ||
| E | 484 | - | 6 | 0.0000032 |
| A | 1896553 | 0.9972657 | ||
| D | 6 | 0.0000032 | ||
| G | 3 | 0.0000016 | ||
| K | 32 | 0.0000168 | ||
| L | 2 | 0.0000011 | ||
| P | 59 | 0.0000310 | ||
| Q | 19 | 0.0000100 | ||
| R | 17 | 0.0000089 | ||
| S | 317 | 0.0001667 | ||
| T | 142 | 0.0000747 | ||
| V | 766 | 0.0004028 | ||
| X | 1405 | 0.0007388 | ||
| F | 486 | # | 3 | 0.0000016 |
| - | 5 | 0.0000026 | ||
| A | 92 | 0.0000484 | ||
| E | 1 | 0.0000005 | ||
| I | 523 | 0.0002750 | ||
| L | 34 | 0.0000179 | ||
| P | 27 | 0.0000142 | ||
| S | 467 | 0.0002456 | ||
| V | 815952 | 0.4290526 | ||
| X | 2054 | 0.0010801 | ||
| Q | 493 | # | 2 | 0.0000011 |
| - | 1 | 0.0000005 | ||
| E | 6 | 0.0000032 | ||
| G | 4 | 0.0000021 | ||
| H | 10 | 0.0000053 | ||
| I | 1 | 0.0000005 | ||
| K | 10 | 0.0000053 | ||
| L | 18 | 0.0000095 | ||
| P | 1 | 0.0000005 | ||
| R | 1075437 | 0.5654977 | ||
| X | 1991 | 0.0010469 | ||
| G | 496 | - | 1 | 0.0000005 |
| A | 7 | 0.0000037 | ||
| C | 1 | 0.0000005 | ||
| D | 2 | 0.0000011 | ||
| K | 1 | 0.0000005 | ||
| N | 23 | 0.0000121 | ||
| S | 35974 | 0.0189162 | ||
| T | 9 | 0.0000047 | ||
| V | 4 | 0.0000021 | ||
| X | 305 | 0.0001604 | ||
| Q | 498 | # | 9 | 0.0000047 |
| $ | 3 | 0.0000016 | ||
| - | 6 | 0.0000032 | ||
| D | 1 | 0.0000005 | ||
| H | 7 | 0.0000037 | ||
| I | 1 | 0.0000005 | ||
| K | 1 | 0.0000005 | ||
| L | 14 | 0.0000074 | ||
| N | 1 | 0.0000005 | ||
| P | 3 | 0.0000016 | ||
| R | 1895069 | 0.9964853 | ||
| T | 1 | 0.0000005 | ||
| V | 1 | 0.0000005 | ||
| X | 4309 | 0.0022658 | ||
| Y | 6 | 0.0000032 | ||
| N | 501 | # | 2 | 0.0000011 |
| $ | 1 | 0.0000005 | ||
| - | 29 | 0.0000152 | ||
| A | 1 | 0.0000005 | ||
| C | 5 | 0.0000026 | ||
| D | 2 | 0.0000011 | ||
| F | 10 | 0.0000053 | ||
| H | 2 | 0.0000011 | ||
| I | 1 | 0.0000005 | ||
| K | 1 | 0.0000005 | ||
| P | 1 | 0.0000005 | ||
| Q | 5 | 0.0000026 | ||
| S | 1 | 0.0000005 | ||
| T | 5 | 0.0000026 | ||
| V | 1 | 0.0000005 | ||
| X | 392 | 0.0002061 | ||
| Y | 1899492 | 0.9988111 | ||
| Y | 505 | # | 6 | 0.0000032 |
| - | 26 | 0.0000137 | ||
| D | 1 | 0.0000005 | ||
| H | 1898039 | 0.9980471 | ||
| Q | 2 | 0.0000011 | ||
| X | 405 | 0.0002130 | ||
| T | 547 | A | 17 | 0.0000089 |
| I | 2576 | 0.0013545 | ||
| K | 37126 | 0.0195220 | ||
| R | 2 | 0.0000011 | ||
| S | 1 | 0.0000005 | ||
| X | 404 | 0.0002124 | ||
| H | 655 | F | 39 | 0.0000205 |
| X | 171 | 0.0000899 | ||
| Y | 1900067 | 0.9991134 | ||
| N | 658 | D | 137 | 0.0000720 |
| H | 1 | 0.0000005 | ||
| I | 11 | 0.0000058 | ||
| K | 36 | 0.0000189 | ||
| S | 41356 | 0.0217463 | ||
| T | 3 | 0.0000016 | ||
| X | 414 | 0.0002177 | ||
| Y | 13 | 0.0000068 | ||
| Q | 677 | - | 14 | 0.0000074 |
| D | 2 | 0.0000011 | ||
| E | 10701 | 0.0056269 | ||
| G | 1 | 0.0000005 | ||
| H | 1364 | 0.0007172 | ||
| K | 7 | 0.0000037 | ||
| L | 39 | 0.0000205 | ||
| P | 3 | 0.0000016 | ||
| R | 112 | 0.0000589 | ||
| X | 51 | 0.0000268 | ||
| N | 679 | - | 7 | 0.0000037 |
| E | 5 | 0.0000026 | ||
| G | 2 | 0.0000011 | ||
| K | 1898537 | 0.9983089 | ||
| M | 13 | 0.0000068 | ||
| Q | 5 | 0.0000026 | ||
| R | 72 | 0.0000379 | ||
| T | 7 | 0.0000037 | ||
| X | 392 | 0.0002061 | ||
| P | 681 | D | 1 | 0.0000005 |
| H | 1892795 | 0.9952896 | ||
| L | 5 | 0.0000026 | ||
| N | 20 | 0.0000105 | ||
| Q | 4 | 0.0000021 | ||
| R | 517 | 0.0002719 | ||
| S | 1 | 0.0000005 | ||
| X | 1640 | 0.0008624 | ||
| Y | 248 | 0.0001304 | ||
| S | 704 | # | 2 | 0.0000011 |
| A | 21 | 0.0000110 | ||
| I | 1 | 0.0000005 | ||
| L | 226840 | 0.1192794 | ||
| P | 61 | 0.0000321 | ||
| T | 18 | 0.0000095 | ||
| V | 1 | 0.0000005 | ||
| X | 1215 | 0.0006389 | ||
| N | 764 | E | 11 | 0.0000058 |
| I | 38 | 0.0000200 | ||
| K | 1874195 | 0.9855092 | ||
| Q | 18 | 0.0000095 | ||
| R | 24 | 0.0000126 | ||
| X | 20204 | 0.0106239 | ||
| D | 796 | # | 1 | 0.0000005 |
| C | 12 | 0.0000063 | ||
| F | 9 | 0.0000047 | ||
| H | 193 | 0.0001015 | ||
| I | 1 | 0.0000005 | ||
| N | 6 | 0.0000032 | ||
| S | 2 | 0.0000011 | ||
| X | 2810 | 0.0014776 | ||
| Y | 1897338 | 0.9976785 | ||
| N | 856 | I | 2 | 0.0000011 |
| K | 35483 | 0.0186580 | ||
| L | 1 | 0.0000005 | ||
| S | 68 | 0.0000358 | ||
| X | 244 | 0.0001283 | ||
| Y | 1 | 0.0000005 | ||
| Q | 954 | $ | 1 | 0.0000005 |
| H | 1900172 | 0.9991687 | ||
| L | 28 | 0.0000147 | ||
| N | 5 | 0.0000026 | ||
| R | 286 | 0.0001504 | ||
| X | 315 | 0.0001656 | ||
| Y | 188 | 0.0000989 | ||
| N | 969 | K | 1900821 | 0.9995099 |
| R | 57 | 0.0000300 | ||
| T | 7 | 0.0000037 | ||
| X | 136 | 0.0000715 | ||
| L | 981 | F | 35527 | 0.0186812 |
| I | 155 | 0.0000815 | ||
| V | 4 | 0.0000021 | ||
| X | 234 | 0.0001230 | ||
| A | 1020 | D | 8 | 0.0000042 |
| F | 10 | 0.0000053 | ||
| G | 10 | 0.0000053 | ||
| P | 1 | 0.0000005 | ||
| S | 25920 | 0.0136295 | ||
| T | 46 | 0.0000242 | ||
| V | 938 | 0.0004932 | ||
| X | 223 | 0.0001173 | ||
| P | 1162 | A | 8 | 0.0000042 |
| L | 7288 | 0.0038323 | ||
| Q | 45 | 0.0000237 | ||
| R | 92 | 0.0000484 | ||
| S | 2897 | 0.0015233 | ||
| T | 31 | 0.0000163 | ||
| X | 233 | 0.0001225 |
Table 1B. Details regarding common mutations listed in A and their geographic locations.
| ori | pos | mut | codon | mut | covariations | location | # of occurrences | #seqs from local | #seqs from state/province | #seqs from country | #seqs from continent |
|---|---|---|---|---|---|---|---|---|---|---|---|
| V | 3 | # | GTT | G-T | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452X,S477N,T478K,E484A,F486X,Q493X,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | USA_Idaho | 1 | 1469 | 628812 | North-America 728290 | |
| V | 3 | # | GTT | G-T | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | USA_Idaho | 2 | 1469 | 628812 | North-America 728290 | |
| V | 3 | # | GTT | G-T | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486X,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K,D614G | USA_Texas_Houston | 1 | 17064 | 40607 | 628812 | North-America 728290 |
| V | 3 | - | GTT | --- | L5F,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Denmark_Hovedstaden | 1 | 33174 | 114081 | Europe 814628 | |
| V | 3 | - | GTT | --- | L5F,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Spain_Madrid | 1 | 3066 | 25103 | Europe 814628 | |
| V | 3 | - | GTT | --- | L5F,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | USA_New-York_New-York-City | 1 | 46964 | 77057 | 628812 | North-America 728290 |
| V | 3 | - | GTT | --- | L5F,T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | United-Kingdom_Scotland | 1 | 59895 | 253526 | Europe 814628 | |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Australia_New-South-Wales_Sydney | 1 | 11076 | 11076 | 46705 | Oceania 58162 |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Denmark_Midtjylland | 1 | 26266 | 114081 | Europe 814628 | |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Denmark_Nordjylland | 1 | 12174 | 114081 | Europe 814628 | |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | France_Auvergne-Rhone-Alpes_PONT-DU-CHATEAU | 1 | 6 | 20768 | 96373 | Europe 814628 |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Germany_North-Rhine-Westphalia | 3 | 32314 | 160509 | Europe 814628 | |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | India_Tamil-Nadu_Ariyalur | 1 | 37 | 1990 | 10853 | Asia 245659 |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Japan_Fukuoka | 1 | 7461 | 130295 | Asia 245659 | |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Lithuania_Kaunas | 1 | 155 | 1432 | Europe 814628 | |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440X,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Lithuania_Kaunas | 1 | 155 | 1432 | Europe 814628 | |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Lithuania_Kauno-apskr | 1 | 110 | 1432 | Europe 814628 | |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Lithuania_Klaipedos-apskr | 3 | 125 | 1432 | Europe 814628 | |
| V | 3 | A | GTT | GCT | T19X,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | New-Zealand | 3 | 10809 | Oceania 58162 | ||
| V | 3 | A | GTT | GCT | T19X,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | New-Zealand_Bay-of-Plenty | 1 | 248 | 10809 | Oceania 58162 | |
| V | 3 | A | GTT | GCT | T19X,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | New-Zealand_Counties-Manukau | 1 | 678 | 10809 | Oceania 58162 | |
| V | 3 | A | GTT | GCT | T19X,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376X,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | New-Zealand_Lakes | 1 | 81 | 10809 | Oceania 58162 | |
| V | 3 | A | GTT | GCT | T19X,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | New-Zealand_MidCentral | 3 | 340 | 10809 | Oceania 58162 | |
| V | 3 | A | GTT | GCT | T19X,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | New-Zealand_Southern | 1 | 1248 | 10809 | Oceania 58162 | |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | South-Korea | 1 | 30054 | Asia 245659 | ||
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Turkey | 1 | 4437 | Europe 814628 | ||
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | USA_California | 13 | 108486 | 628812 | North-America 728290 | |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | USA_Louisiana | 1 | 5252 | 628812 | North-America 728290 | |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | USA_Nevada | 1 | 6610 | 628812 | North-America 728290 | |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K,D614G | USA_New-Jersey | 1 | 29312 | 628812 | North-America 728290 | |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | USA_New-York_New-York-City | 2 | 46964 | 77057 | 628812 | North-America 728290 |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K,D614G | USA_Texas | 1 | 40607 | 628812 | North-America 728290 | |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | USA_Texas | 1 | 40607 | 628812 | North-America 728290 | |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,D796Y,Q954H,N969K,D614G | USA_Utah | 1 | 27035 | 628812 | North-America 728290 | |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S,D614G | United-Kingdom_England_PHWC | 2 | 88 | 175858 | 253526 | Europe 814628 |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S,D614G | United-Kingdom_England_QEUH | 1 | 36199 | 175858 | 253526 | Europe 814628 |
| V | 3 | A | GTT | GCT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | United-Kingdom_Scotland | 1 | 59895 | 253526 | Europe 814628 | |
| V | 3 | C | GTT | TGT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | USA_Georgia | 1 | 9885 | 628812 | North-America 728290 | |
| V | 3 | F | GTT | TTT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Australia_Victoria | 1 | 17087 | 46705 | Oceania 58162 | |
| V | 3 | F | GTT | TTT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Chile_Atacama_COPIAPO | 1 | 49 | 395 | 7931 | South-America 42450 |
| V | 3 | F | GTT | TTT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142X,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417X,N440X,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Chile_Atacama_Chanaral | 1 | 21 | 395 | 7931 | South-America 42450 |
| V | 3 | F | GTT | TTT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Finland | 3 | 5793 | Europe 814628 | ||
| V | 3 | F | GTT | TTT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | France_Bretagne_Vannes | 1 | 823 | 4839 | 96373 | Europe 814628 |
| V | 3 | F | GTT | TTT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,V289I,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Germany_Baden-Wurttemberg | 2 | 27910 | 160509 | Europe 814628 | |
| V | 3 | F | GTT | TTT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452M,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Hong-Kong | 1 | 3023 | Asia 245659 | ||
| V | 3 | F | GTT | TTT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S,D614G | Japan_Gunma | 1 | 1470 | 130295 | Asia 245659 | |
| V | 3 | F | GTT | TTT | T19I,L24F,P25-,P26I,A27-,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Spain_Castilla-y-Leon | 1 | 3895 | 25103 | Europe 814628 | |
| V | 3 | F | GTT | TTT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K,D614G | USA_Florida | 1 | 34573 | 628812 | North-America 728290 | |
| V | 3 | F | GTT | TTT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K,D614G | USA_Idaho | 1 | 1469 | 628812 | North-America 728290 | |
| V | 3 | F | GTT | TTT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,T76I,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | USA_Oregon | 1 | 6949 | 628812 | North-America 728290 | |
| V | 3 | F | GTT | TTT | A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,G339D,R346K,S371L,S373P,S375F,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F,D614G | USA_Pennsylvania | 1 | 15629 | 628812 | North-America 728290 | |
| V | 3 | F | GTT | TTT | L5-,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,R346T,S371X,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | United-Kingdom_England_PHEC | 1 | 44147 | 175858 | 253526 | Europe 814628 |
| V | 3 | F | GTT | TTT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | United-Kingdom_Scotland | 1 | 59895 | 253526 | Europe 814628 | |
| V | 3 | F | GTT | TTT | T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Vietnam_Hanoi | 1 | 150 | 401 | Asia 245659 | |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | American-Samoa | 2 | 40 | Oceania 58162 | ||
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Andorra_Andorra | 1 | 122 | 122 | Europe 814628 | |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina | 3 | 1522 | South-America 42450 | ||
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Buenos-Aires | 10 | 190 | 1522 | South-America 42450 | |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Buenos-Aires_Bernal | 1 | 1 | 190 | 1522 | South-America 42450 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Buenos-Aires_Ezpeleta | 1 | 1 | 190 | 1522 | South-America 42450 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Buenos-Aires_Quilmes | 1 | 4 | 190 | 1522 | South-America 42450 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Catamarca | 3 | 139 | 1522 | South-America 42450 | |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Chaco_P-R-Saenz-Pena | 1 | 3 | 40 | 1522 | South-America 42450 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Corrientes | 1 | 37 | 1522 | South-America 42450 | |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Entre-Rios | 11 | 135 | 1522 | South-America 42450 | |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Formosa | 6 | 25 | 1522 | South-America 42450 | |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_La-Rioja | 2 | 52 | 1522 | South-America 42450 | |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Mendoza | 1 | 109 | 1522 | South-America 42450 | |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Mendoza | 16 | 109 | 1522 | South-America 42450 | |
| V | 3 | G | GTT | GGT | V3G,T19X,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Mendoza | 2 | 109 | 1522 | South-America 42450 | |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Mendoza_Las-Heras | 1 | 3 | 109 | 1522 | South-America 42450 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Neuquen_Alumine | 2 | 6 | 75 | 1522 | South-America 42450 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Neuquen_Centenario | 1 | 3 | 75 | 1522 | South-America 42450 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Neuquen_Junin-de-los-Andes | 1 | 3 | 75 | 1522 | South-America 42450 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Neuquen_Neuquen | 1 | 31 | 75 | 1522 | South-America 42450 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_San-Luis | 11 | 90 | 1522 | South-America 42450 | |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Santa-Cruz | 4 | 45 | 1522 | South-America 42450 | |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,S255F,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Santa-Cruz | 1 | 45 | 1522 | South-America 42450 | |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Santa-Fe | 14 | 236 | 1522 | South-America 42450 | |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Santa-Fe_Esperanza | 3 | 7 | 236 | 1522 | South-America 42450 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Santa-Fe_Galvez | 1 | 2 | 236 | 1522 | South-America 42450 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Santa-Fe_Rafaela | 2 | 16 | 236 | 1522 | South-America 42450 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Santa-Fe_San-Justo | 2 | 2 | 236 | 1522 | South-America 42450 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Santa-Fe_Santa-Fe | 4 | 21 | 236 | 1522 | South-America 42450 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Santiago-del-Estero | 1 | 79 | 1522 | South-America 42450 | |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Argentina_Santiago-del-Estero | 12 | 79 | 1522 | South-America 42450 | |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Aruba | 1 | 430 | South-America 42450 | ||
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Aruba_Aruba | 14 | 390 | 430 | South-America 42450 | |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Australia_Australian-Capital-Territory | 9 | 2229 | 46705 | Oceania 58162 | |
| V | 3 | G | GTT | GGT | V3G,T19X,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Australia_Australian-Capital-Territory | 5 | 2229 | 46705 | Oceania 58162 | |
| V | 3 | G | GTT | GGT | T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,S371F,S373P,S375F,T376A,D405N,N440K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Australia_New-South-Wales_Sydney | 1 | 11076 | 11076 | 46705 | Oceania 58162 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,R346I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Australia_New-South-Wales_Sydney | 3 | 11076 | 11076 | 46705 | Oceania 58162 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Australia_New-South-Wales_Sydney | 3 | 11076 | 11076 | 46705 | Oceania 58162 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,N764K,D796Y,Q954H,N969K,D614G | Australia_New-South-Wales_Sydney | 1 | 11076 | 11076 | 46705 | Oceania 58162 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Australia_New-South-Wales_Sydney | 274 | 11076 | 11076 | 46705 | Oceania 58162 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1162L,D614G | Australia_New-South-Wales_Sydney | 2 | 11076 | 11076 | 46705 | Oceania 58162 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Australia_New-South-Wales_Sydney | 1 | 11076 | 11076 | 46705 | Oceania 58162 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,Y505H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D614G | Australia_New-South-Wales_Sydney | 1 | 11076 | 11076 | 46705 | Oceania 58162 |
| V | 3 | G | GTT | GGT | V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,T376A,D405N,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,H655Y,N679K,P681H,D796Y,Q954H,D614G | Australia_New-South-Wales_Sydney | 1 | 11076 | 11076 | 46705 | Oceania 58162 |
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