COVID-19 Viral Genome Analysis Pipeline
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Tables of mutating sites in Spike, updated daily
Last update: Apr 23, 2025
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Collection dates: 2025-01-23 - 2025-04-22
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: 29,705
| ori | pos | mut | count | frequency |
|---|---|---|---|---|
| L | 5 | F | 297 | 0.0099983 |
| I | 2 | 0.0000673 | ||
| X | 745 | 0.0250800 | ||
| N | 17 | - | 4 | 0.0001347 |
| C | 1 | 0.0000337 | ||
| D | 1 | 0.0000337 | ||
| L | 1 | 0.0000337 | ||
| M | 114 | 0.0038377 | ||
| S | 1 | 0.0000337 | ||
| X | 1805 | 0.0607642 | ||
| T | 19 | A | 2 | 0.0000673 |
| F | 44 | 0.0014812 | ||
| I | 27232 | 0.9167480 | ||
| L | 9 | 0.0003030 | ||
| S | 1 | 0.0000337 | ||
| V | 3 | 0.0001010 | ||
| X | 2302 | 0.0774954 | ||
| R | 21 | - | 169 | 0.0056893 |
| F | 8 | 0.0002693 | ||
| I | 8 | 0.0002693 | ||
| K | 4 | 0.0001347 | ||
| L | 24 | 0.0008079 | ||
| N | 4 | 0.0001347 | ||
| P | 1 | 0.0000337 | ||
| S | 1 | 0.0000337 | ||
| T | 26294 | 0.8851708 | ||
| V | 1 | 0.0000337 | ||
| X | 3078 | 0.1036189 | ||
| T | 22 | - | 2 | 0.0000673 |
| C | 1 | 0.0000337 | ||
| F | 3 | 0.0001010 | ||
| I | 6 | 0.0002020 | ||
| L | 3 | 0.0001010 | ||
| N | 14288 | 0.4809965 | ||
| X | 1903 | 0.0640633 | ||
| L | 24 | - | 27064 | 0.9110924 |
| H | 1 | 0.0000337 | ||
| I | 1 | 0.0000337 | ||
| N | 26 | 0.0008753 | ||
| S | 30 | 0.0010099 | ||
| T | 12 | 0.0004040 | ||
| X | 2363 | 0.0795489 | ||
| P | 25 | - | 27124 | 0.9131123 |
| I | 1 | 0.0000337 | ||
| N | 68 | 0.0022892 | ||
| Q | 26 | 0.0008753 | ||
| S | 1 | 0.0000337 | ||
| T | 42 | 0.0014139 | ||
| X | 2397 | 0.0806935 | ||
| Y | 1 | 0.0000337 | ||
| P | 26 | - | 27163 | 0.9144252 |
| L | 1 | 0.0000337 | ||
| N | 14 | 0.0004713 | ||
| Q | 119 | 0.0040061 | ||
| S | 1 | 0.0000337 | ||
| T | 6 | 0.0002020 | ||
| X | 2328 | 0.0783706 | ||
| A | 27 | - | 86 | 0.0028951 |
| N | 1 | 0.0000337 | ||
| Q | 20 | 0.0006733 | ||
| S | 27469 | 0.9247265 | ||
| T | 1 | 0.0000337 | ||
| X | 2024 | 0.0681367 | ||
| S | 31 | - | 13560 | 0.4564888 |
| A | 1 | 0.0000337 | ||
| F | 334 | 0.0112439 | ||
| L | 1 | 0.0000337 | ||
| P | 2156 | 0.0725804 | ||
| X | 795 | 0.0267632 | ||
| Y | 1 | 0.0000337 | ||
| S | 50 | L | 28242 | 0.9507490 |
| X | 1336 | 0.0449756 | ||
| F | 59 | - | 17 | 0.0005723 |
| A | 1 | 0.0000337 | ||
| L | 8 | 0.0002693 | ||
| S | 12110 | 0.4076755 | ||
| X | 1377 | 0.0463558 | ||
| A | 67 | - | 1 | 0.0000337 |
| G | 3 | 0.0001010 | ||
| S | 13 | 0.0004376 | ||
| T | 1 | 0.0000337 | ||
| V | 89 | 0.0029961 | ||
| X | 1308 | 0.0440330 | ||
| H | 69 | - | 27672 | 0.9315603 |
| A | 1 | 0.0000337 | ||
| L | 18 | 0.0006060 | ||
| P | 4 | 0.0001347 | ||
| R | 1 | 0.0000337 | ||
| S | 17 | 0.0005723 | ||
| X | 1886 | 0.0634910 | ||
| Y | 3 | 0.0001010 | ||
| V | 70 | - | 27718 | 0.9331089 |
| I | 1 | 0.0000337 | ||
| X | 1836 | 0.0618078 | ||
| G | 72 | - | 18 | 0.0006060 |
| E | 34 | 0.0011446 | ||
| R | 198 | 0.0066655 | ||
| V | 1 | 0.0000337 | ||
| W | 6 | 0.0002020 | ||
| X | 1270 | 0.0427537 | ||
| P | 85 | - | 2 | 0.0000673 |
| L | 16 | 0.0005386 | ||
| Q | 41 | 0.0013802 | ||
| R | 2 | 0.0000673 | ||
| S | 94 | 0.0031645 | ||
| T | 1 | 0.0000337 | ||
| X | 1351 | 0.0454806 | ||
| I | 101 | T | 380 | 0.0127925 |
| X | 1327 | 0.0446726 | ||
| V | 127 | F | 29391 | 0.9894294 |
| X | 183 | 0.0061606 | ||
| G | 142 | - | 16 | 0.0005386 |
| D | 29021 | 0.9769736 | ||
| H | 1 | 0.0000337 | ||
| X | 616 | 0.0207372 | ||
| Y | 144 | - | 28946 | 0.9744487 |
| D | 1 | 0.0000337 | ||
| H | 2 | 0.0000673 | ||
| N | 6 | 0.0002020 | ||
| X | 486 | 0.0163609 | ||
| H | 146 | - | 119 | 0.0040061 |
| K | 4 | 0.0001347 | ||
| Q | 63 | 0.0021209 | ||
| X | 130 | 0.0043764 | ||
| Y | 3 | 0.0001010 | ||
| K | 147 | - | 4 | 0.0001347 |
| E | 28 | 0.0009426 | ||
| I | 26 | 0.0008753 | ||
| N | 19 | 0.0006396 | ||
| Q | 3 | 0.0001010 | ||
| R | 5 | 0.0001683 | ||
| T | 13 | 0.0004376 | ||
| X | 127 | 0.0042754 | ||
| K | 150 | - | 1 | 0.0000337 |
| E | 26 | 0.0008753 | ||
| I | 14 | 0.0004713 | ||
| N | 31 | 0.0010436 | ||
| Q | 17 | 0.0005723 | ||
| R | 19 | 0.0006396 | ||
| T | 9 | 0.0003030 | ||
| X | 129 | 0.0043427 | ||
| F | 157 | - | 2 | 0.0000673 |
| L | 82 | 0.0027605 | ||
| P | 1 | 0.0000337 | ||
| S | 28646 | 0.9643494 | ||
| V | 2 | 0.0000673 | ||
| X | 674 | 0.0226898 | ||
| R | 158 | - | 1 | 0.0000337 |
| E | 9 | 0.0003030 | ||
| G | 28916 | 0.9734388 | ||
| S | 1 | 0.0000337 | ||
| V | 1 | 0.0000337 | ||
| X | 439 | 0.0147787 | ||
| K | 182 | - | 5 | 0.0001683 |
| E | 56 | 0.0018852 | ||
| I | 9 | 0.0003030 | ||
| N | 439 | 0.0147787 | ||
| Q | 1 | 0.0000337 | ||
| R | 2179 | 0.0733547 | ||
| T | 17 | 0.0005723 | ||
| X | 161 | 0.0054200 | ||
| Q | 183 | - | 7 | 0.0002357 |
| E | 12 | 0.0004040 | ||
| H | 969 | 0.0326208 | ||
| X | 157 | 0.0052853 | ||
| G | 184 | - | 2 | 0.0000673 |
| C | 1 | 0.0000337 | ||
| D | 9 | 0.0003030 | ||
| S | 291 | 0.0097963 | ||
| V | 7 | 0.0002357 | ||
| X | 146 | 0.0049150 | ||
| N | 185 | - | 2 | 0.0000673 |
| D | 151 | 0.0050833 | ||
| I | 64 | 0.0021545 | ||
| K | 2 | 0.0000673 | ||
| S | 4 | 0.0001347 | ||
| T | 1 | 0.0000337 | ||
| X | 179 | 0.0060259 | ||
| Y | 6 | 0.0002020 | ||
| F | 186 | - | 53 | 0.0017842 |
| L | 6871 | 0.2313079 | ||
| S | 1 | 0.0000337 | ||
| W | 1 | 0.0000337 | ||
| X | 260 | 0.0087527 | ||
| R | 190 | - | 1 | 0.0000337 |
| K | 8 | 0.0002693 | ||
| M | 3 | 0.0001010 | ||
| N | 1 | 0.0000337 | ||
| S | 9168 | 0.3086349 | ||
| T | 145 | 0.0048813 | ||
| W | 1 | 0.0000337 | ||
| X | 251 | 0.0084498 | ||
| N | 211 | - | 28687 | 0.9657297 |
| G | 11 | 0.0003703 | ||
| I | 14 | 0.0004713 | ||
| K | 3 | 0.0001010 | ||
| T | 10 | 0.0003366 | ||
| X | 653 | 0.0219828 | ||
| L | 212 | - | 15 | 0.0005050 |
| G | 15 | 0.0005050 | ||
| I | 28685 | 0.9656623 | ||
| R | 1 | 0.0000337 | ||
| X | 522 | 0.0175728 | ||
| V | 213 | - | 39 | 0.0013129 |
| C | 1 | 0.0000337 | ||
| E | 20 | 0.0006733 | ||
| G | 29444 | 0.9912136 | ||
| T | 3 | 0.0001010 | ||
| W | 1 | 0.0000337 | ||
| X | 166 | 0.0055883 | ||
| L | 216 | F | 29498 | 0.9930315 |
| R | 2 | 0.0000673 | ||
| S | 2 | 0.0000673 | ||
| X | 159 | 0.0053526 | ||
| R | 237 | K | 99 | 0.0033328 |
| M | 19 | 0.0006396 | ||
| S | 9 | 0.0003030 | ||
| X | 521 | 0.0175391 | ||
| H | 245 | - | 27 | 0.0009089 |
| N | 29166 | 0.9818549 | ||
| X | 477 | 0.0160579 | ||
| Y | 1 | 0.0000337 | ||
| G | 252 | D | 3 | 0.0001010 |
| S | 77 | 0.0025922 | ||
| V | 13 | 0.0004376 | ||
| X | 470 | 0.0158223 | ||
| W | 258 | - | 2 | 0.0000673 |
| L | 88 | 0.0029625 | ||
| R | 3 | 0.0001010 | ||
| X | 706 | 0.0237670 | ||
| A | 262 | - | 2 | 0.0000673 |
| D | 9 | 0.0003030 | ||
| S | 58 | 0.0019525 | ||
| T | 4 | 0.0001347 | ||
| V | 23 | 0.0007743 | ||
| X | 566 | 0.0190540 | ||
| A | 264 | - | 2 | 0.0000673 |
| D | 29007 | 0.9765023 | ||
| E | 2 | 0.0000673 | ||
| X | 554 | 0.0186501 | ||
| Y | 5 | 0.0001683 | ||
| I | 332 | A | 4 | 0.0001347 |
| V | 29341 | 0.9877462 | ||
| X | 312 | 0.0105033 | ||
| L | 335 | F | 36 | 0.0012119 |
| S | 57 | 0.0019189 | ||
| X | 308 | 0.0103686 | ||
| G | 339 | D | 18 | 0.0006060 |
| H | 29342 | 0.9877798 | ||
| Q | 1 | 0.0000337 | ||
| R | 5 | 0.0001683 | ||
| V | 1 | 0.0000337 | ||
| X | 319 | 0.0107389 | ||
| Y | 2 | 0.0000673 | ||
| T | 345 | S | 107 | 0.0036021 |
| X | 321 | 0.0108063 | ||
| R | 346 | - | 11 | 0.0003703 |
| A | 3 | 0.0001010 | ||
| G | 1 | 0.0000337 | ||
| I | 17 | 0.0005723 | ||
| K | 51 | 0.0017169 | ||
| P | 1 | 0.0000337 | ||
| S | 3 | 0.0001010 | ||
| T | 11399 | 0.3837401 | ||
| X | 403 | 0.0135667 | ||
| K | 356 | - | 1 | 0.0000337 |
| M | 2 | 0.0000673 | ||
| N | 1 | 0.0000337 | ||
| T | 28998 | 0.9761993 | ||
| X | 645 | 0.0217135 | ||
| S | 371 | F | 29087 | 0.9791954 |
| L | 3 | 0.0001010 | ||
| X | 594 | 0.0199966 | ||
| Y | 3 | 0.0001010 | ||
| S | 373 | P | 29098 | 0.9795657 |
| X | 587 | 0.0197610 | ||
| S | 375 | - | 3 | 0.0001010 |
| A | 1 | 0.0000337 | ||
| F | 29009 | 0.9765696 | ||
| X | 659 | 0.0221848 | ||
| T | 376 | - | 4 | 0.0001347 |
| A | 28600 | 0.9628009 | ||
| N | 363 | 0.0122202 | ||
| S | 23 | 0.0007743 | ||
| V | 3 | 0.0001010 | ||
| X | 657 | 0.0221175 | ||
| R | 403 | K | 27987 | 0.9421646 |
| X | 1532 | 0.0515738 | ||
| D | 405 | I | 1 | 0.0000337 |
| N | 29148 | 0.9812489 | ||
| X | 521 | 0.0175391 | ||
| Y | 1 | 0.0000337 | ||
| R | 408 | G | 1 | 0.0000337 |
| N | 4 | 0.0001347 | ||
| S | 28016 | 0.9431409 | ||
| X | 927 | 0.0312069 | ||
| K | 417 | I | 1 | 0.0000337 |
| N | 28355 | 0.9545531 | ||
| T | 2 | 0.0000673 | ||
| X | 1278 | 0.0430231 | ||
| A | 435 | P | 1 | 0.0000337 |
| S | 3232 | 0.1088032 | ||
| T | 1 | 0.0000337 | ||
| X | 1389 | 0.0467598 | ||
| N | 440 | K | 28070 | 0.9449588 |
| R | 30 | 0.0010099 | ||
| X | 1506 | 0.0506985 | ||
| L | 441 | F | 7 | 0.0002357 |
| I | 3 | 0.0001010 | ||
| R | 165 | 0.0055546 | ||
| V | 12 | 0.0004040 | ||
| X | 1450 | 0.0488133 | ||
| K | 444 | R | 1758 | 0.0591820 |
| T | 3 | 0.0001010 | ||
| X | 1547 | 0.0520788 | ||
| V | 445 | A | 4 | 0.0001347 |
| G | 1 | 0.0000337 | ||
| H | 19361 | 0.6517758 | ||
| L | 12 | 0.0004040 | ||
| N | 1 | 0.0000337 | ||
| P | 1545 | 0.0520114 | ||
| Q | 14 | 0.0004713 | ||
| R | 6852 | 0.2306682 | ||
| X | 1788 | 0.0601919 | ||
| Y | 2 | 0.0000673 | ||
| G | 446 | - | 1 | 0.0000337 |
| D | 3 | 0.0001010 | ||
| I | 8 | 0.0002693 | ||
| N | 173 | 0.0058239 | ||
| R | 4 | 0.0001347 | ||
| S | 27698 | 0.9324356 | ||
| T | 1 | 0.0000337 | ||
| X | 1683 | 0.0566571 | ||
| N | 450 | D | 27965 | 0.9414240 |
| W | 1 | 0.0000337 | ||
| X | 1580 | 0.0531897 | ||
| Y | 1 | 0.0000337 | ||
| L | 452 | - | 1 | 0.0000337 |
| Q | 4 | 0.0001347 | ||
| R | 23 | 0.0007743 | ||
| S | 1 | 0.0000337 | ||
| W | 27901 | 0.9392695 | ||
| X | 1616 | 0.0544016 | ||
| L | 455 | A | 3 | 0.0001010 |
| F | 3 | 0.0001010 | ||
| S | 28057 | 0.9445211 | ||
| W | 1 | 0.0000337 | ||
| X | 1427 | 0.0480391 | ||
| F | 456 | - | 3 | 0.0001010 |
| L | 27949 | 0.9408854 | ||
| V | 127 | 0.0042754 | ||
| X | 1379 | 0.0464232 | ||
| N | 460 | K | 28335 | 0.9538798 |
| R | 1 | 0.0000337 | ||
| X | 1233 | 0.0415082 | ||
| A | 475 | S | 5 | 0.0001683 |
| T | 1 | 0.0000337 | ||
| V | 940 | 0.0316445 | ||
| X | 543 | 0.0182798 | ||
| S | 477 | D | 34 | 0.0011446 |
| K | 7 | 0.0002357 | ||
| N | 29011 | 0.9766369 | ||
| X | 568 | 0.0191214 | ||
| Y | 1 | 0.0000337 | ||
| T | 478 | E | 142 | 0.0047803 |
| I | 289 | 0.0097290 | ||
| K | 28261 | 0.9513887 | ||
| N | 3 | 0.0001010 | ||
| Q | 1 | 0.0000337 | ||
| R | 30 | 0.0010099 | ||
| X | 561 | 0.0188857 | ||
| N | 481 | E | 4 | 0.0001347 |
| I | 3 | 0.0001010 | ||
| K | 28916 | 0.9734388 | ||
| Q | 1 | 0.0000337 | ||
| R | 18 | 0.0006060 | ||
| S | 1 | 0.0000337 | ||
| T | 5 | 0.0001683 | ||
| X | 632 | 0.0212759 | ||
| V | 483 | - | 27527 | 0.9266790 |
| A | 2 | 0.0000673 | ||
| D | 1 | 0.0000337 | ||
| G | 2 | 0.0000673 | ||
| K | 2 | 0.0000673 | ||
| R | 5 | 0.0001683 | ||
| X | 2021 | 0.0680357 | ||
| E | 484 | - | 29 | 0.0009763 |
| A | 24 | 0.0008079 | ||
| D | 1 | 0.0000337 | ||
| K | 28798 | 0.9694664 | ||
| P | 5 | 0.0001683 | ||
| S | 2 | 0.0000673 | ||
| T | 1 | 0.0000337 | ||
| V | 1 | 0.0000337 | ||
| X | 731 | 0.0246087 | ||
| F | 486 | - | 10 | 0.0003366 |
| A | 2 | 0.0000673 | ||
| H | 6 | 0.0002020 | ||
| L | 31 | 0.0010436 | ||
| P | 28834 | 0.9706783 | ||
| R | 1 | 0.0000337 | ||
| S | 14 | 0.0004713 | ||
| V | 8 | 0.0002693 | ||
| X | 715 | 0.0240700 | ||
| N | 487 | D | 259 | 0.0087191 |
| K | 2 | 0.0000673 | ||
| X | 540 | 0.0181788 | ||
| Q | 493 | D | 2 | 0.0000673 |
| E | 25899 | 0.8718734 | ||
| R | 5 | 0.0001683 | ||
| V | 5 | 0.0001683 | ||
| X | 575 | 0.0193570 | ||
| Q | 498 | R | 28912 | 0.9733042 |
| X | 763 | 0.0256859 | ||
| T | 500 | - | 11 | 0.0003703 |
| A | 35 | 0.0011783 | ||
| G | 2 | 0.0000673 | ||
| S | 2 | 0.0000673 | ||
| X | 784 | 0.0263929 | ||
| N | 501 | X | 795 | 0.0267632 |
| Y | 28869 | 0.9718566 | ||
| Y | 505 | H | 28808 | 0.9698031 |
| X | 823 | 0.0277058 | ||
| A | 522 | P | 90 | 0.0030298 |
| S | 2 | 0.0000673 | ||
| T | 1 | 0.0000337 | ||
| V | 9 | 0.0003030 | ||
| X | 211 | 0.0071032 | ||
| E | 554 | D | 5 | 0.0001683 |
| K | 29517 | 0.9936711 | ||
| N | 3 | 0.0001010 | ||
| X | 89 | 0.0029961 | ||
| A | 570 | V | 29623 | 0.9972395 |
| X | 42 | 0.0014139 | ||
| T | 572 | A | 3 | 0.0001010 |
| I | 3619 | 0.1218313 | ||
| X | 71 | 0.0023902 | ||
| P | 621 | - | 4 | 0.0001347 |
| A | 2 | 0.0000673 | ||
| F | 11 | 0.0003703 | ||
| S | 29230 | 0.9840094 | ||
| T | 1 | 0.0000337 | ||
| X | 379 | 0.0127588 | ||
| H | 655 | F | 2 | 0.0000673 |
| X | 1373 | 0.0462212 | ||
| Y | 28320 | 0.9533749 | ||
| Q | 677 | E | 2 | 0.0000673 |
| H | 173 | 0.0058239 | ||
| K | 6 | 0.0002020 | ||
| L | 7 | 0.0002357 | ||
| R | 5 | 0.0001683 | ||
| X | 697 | 0.0234641 | ||
| N | 679 | K | 24236 | 0.8158896 |
| M | 3 | 0.0001010 | ||
| Q | 4 | 0.0001347 | ||
| R | 4233 | 0.1425013 | ||
| T | 41 | 0.0013802 | ||
| X | 873 | 0.0293890 | ||
| S | 680 | - | 8 | 0.0002693 |
| A | 45 | 0.0015149 | ||
| F | 265 | 0.0089211 | ||
| P | 259 | 0.0087191 | ||
| X | 727 | 0.0244740 | ||
| Y | 58 | 0.0019525 | ||
| P | 681 | - | 727 | 0.0244740 |
| H | 91 | 0.0030635 | ||
| L | 3 | 0.0001010 | ||
| R | 27752 | 0.9342535 | ||
| X | 870 | 0.0292880 | ||
| A | 688 | D | 1 | 0.0000337 |
| G | 1 | 0.0000337 | ||
| S | 9 | 0.0003030 | ||
| T | 13 | 0.0004376 | ||
| V | 192 | 0.0064636 | ||
| X | 1590 | 0.0535263 | ||
| S | 704 | L | 91 | 0.0030635 |
| X | 1460 | 0.0491500 | ||
| N | 764 | K | 28263 | 0.9514560 |
| R | 1 | 0.0000337 | ||
| X | 1414 | 0.0476014 | ||
| R | 765 | C | 2 | 0.0000673 |
| G | 1 | 0.0000337 | ||
| H | 53 | 0.0017842 | ||
| L | 245 | 0.0082478 | ||
| S | 31 | 0.0010436 | ||
| X | 1387 | 0.0466925 | ||
| D | 796 | - | 1 | 0.0000337 |
| H | 19 | 0.0006396 | ||
| X | 1363 | 0.0458845 | ||
| Y | 28314 | 0.9531729 | ||
| A | 845 | S | 122 | 0.0041071 |
| T | 2 | 0.0000673 | ||
| V | 18 | 0.0006060 | ||
| X | 1276 | 0.0429557 | ||
| S | 939 | F | 27995 | 0.9424339 |
| L | 1 | 0.0000337 | ||
| V | 2 | 0.0000673 | ||
| X | 1566 | 0.0527184 | ||
| A | 942 | - | 3 | 0.0001010 |
| S | 89 | 0.0029961 | ||
| T | 3 | 0.0001010 | ||
| V | 1 | 0.0000337 | ||
| X | 1471 | 0.0495203 | ||
| Q | 954 | H | 28197 | 0.9492341 |
| L | 1 | 0.0000337 | ||
| N | 1 | 0.0000337 | ||
| R | 3 | 0.0001010 | ||
| X | 1477 | 0.0497223 | ||
| Y | 2 | 0.0000673 | ||
| N | 969 | K | 28116 | 0.9465073 |
| X | 1580 | 0.0531897 | ||
| K | 1086 | I | 1 | 0.0000337 |
| Q | 1 | 0.0000337 | ||
| R | 6838 | 0.2301969 | ||
| X | 366 | 0.0123212 | ||
| V | 1104 | L | 25941 | 0.8732873 |
| X | 248 | 0.0083488 | ||
| P | 1143 | F | 34 | 0.0011446 |
| I | 1 | 0.0000337 | ||
| L | 29397 | 0.9896314 | ||
| X | 212 | 0.0071368 | ||
| A | 1174 | T | 4 | 0.0001347 |
| V | 430 | 0.0144757 | ||
| X | 503 | 0.0169332 | ||
| V | 1176 | F | 101 | 0.0034001 |
| G | 1 | 0.0000337 | ||
| X | 433 | 0.0145767 | ||
| N | 1187 | H | 1 | 0.0000337 |
| S | 63 | 0.0021209 | ||
| T | 36 | 0.0012119 | ||
| X | 988 | 0.0332604 | ||
| C | 1235 | F | 142 | 0.0047803 |
| S | 1 | 0.0000337 | ||
| X | 943 | 0.0317455 | ||
| V | 1264 | A | 2 | 0.0000673 |
| E | 1 | 0.0000337 | ||
| L | 452 | 0.0152163 | ||
| M | 3 | 0.0001010 | ||
| X | 687 | 0.0231274 |
Table 1B. Details regarding common mutations listed in A and their geographic locations.
| ori | pos | mut | covariations | location | # of occurrences | #seqs from local | #seqs from state/province | #seqs from country | #seqs from continent |
|---|---|---|---|---|---|---|---|---|---|
| L | 5 | F | L5F,T19I,R21T,L24X,P25X,P26X,A27X,S31X,S50L,G72E,V127X,G142D,Y144X,F157S,R158G,F186L,R190S,N211X,L212X,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403X,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,A475V,S477N,T478K,N481K,V483X,E484K,F486P,Q493E,Q498R,N501Y,Y505H,A522P,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Brazil_Para | 1 | 3 | 605 | South-America 1199 | |
| L | 5 | F | L5F,T19X,R21X,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655X,N679K,P681R,N764K,D796Y,S939X,A942X,Q954X,N969X,V1104L,P1143L,N1187X,C1235X,V1264X,D614G | USA_Colorado | 1 | 912 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19X,R21X,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939X,A942X,Q954X,N969X,V1104L,P1143L,D614G | USA_Colorado | 1 | 912 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | South-Africa_Western-Cape | 1 | 40 | 62 | Africa 97 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483X,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | Denmark | 1 | 333 | Europe 5391 | ||
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31F,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483X,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | Denmark | 5 | 333 | Europe 5391 | ||
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,K417N,A435S,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Italy | 1 | 238 | Europe 5391 | ||
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,T572I,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | USA_California_Sacramento | 1 | 152 | 2574 | 12495 | North-America 17273 |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | United-Kingdom_Wales | 1 | 452 | 1269 | Europe 5391 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939X,A942X,Q954X,N969K,V1104L,P1143L,D614G | USA_New-York_Onondaga | 1 | 368 | 1758 | 12495 | North-America 17273 |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | USA_New-York_Onondaga | 1 | 368 | 1758 | 12495 | North-America 17273 |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | USA_New-York_Onondaga | 1 | 368 | 1758 | 12495 | North-America 17273 |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | USA_New-York_New-York-City | 1 | 454 | 1758 | 12495 | North-America 17273 |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | Netherlands_Noord-Brabant | 6 | 29 | 246 | Europe 5391 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | Netherlands_Utrecht | 1 | 29 | 246 | Europe 5391 | |
| L | 5 | F | L5F,T19I,R21T,L24X,P25X,P26X,A27X,S31-,H69X,V70X,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | United-Kingdom_England | 1 | 398 | 1269 | Europe 5391 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408X,K417X,A435X,N440X,L441X,K444X,V445X,G446X,N450X,L452X,L455X,F456X,N460X,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | Netherlands_Noord-Brabant | 2 | 29 | 246 | Europe 5391 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S31F,S50X,F59X,A67X,H69X,V70X,G72X,P85X,V127F,G142D,Y144-,F157S,R158G,K182N,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456V,N460K,S477N,N481K,V483-,E484K,F486P,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,P1143L,V1264L,D614G | USA_Illinois_Cook | 1 | 477 | 626 | 12495 | North-America 17273 |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,A435S,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | USA_California | 1 | 2574 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | USA_California | 5 | 2574 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,K147Q,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,K417X,A435X,N440X,L441X,K444X,V445X,G446X,N450X,L452X,L455X,F456X,N460X,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681-,A688X,N764X,R765X,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Chile_Coquimbo_La-Serena | 1 | 20 | 52 | 528 | South-America 1199 |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,R237X,H245X,G252X,W258X,A262X,A264X,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,K417X,A435X,N440X,L441X,K444X,V445X,G446X,N450X,L452X,L455X,F456X,N460X,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681-,A688X,S704X,N764X,R765X,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Chile_Coquimbo_Coquimbo | 1 | 31 | 52 | 528 | South-America 1199 |
| L | 5 | F | L5F,N17X,T19X,R21X,T22X,L24X,P25X,P26X,A27X,S31X,S50L,H69X,V70X,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403X,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483X,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655X,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | United-Kingdom_England | 2 | 398 | 1269 | Europe 5391 | |
| L | 5 | F | L5F,N17X,T19X,R21X,T22X,L24X,P25X,P26X,A27X,S31X,S50L,H69X,V70X,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403X,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483X,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | United-Kingdom_England | 3 | 398 | 1269 | Europe 5391 | |
| L | 5 | F | L5F,N17X,T19X,R21X,T22X,L24X,P25X,P26X,A27X,S31-,S50L,H69X,V70X,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403X,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483X,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | United-Kingdom_England | 2 | 398 | 1269 | Europe 5391 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,A1174X,V1176X,N1187X,C1235X,D614G | Japan_Toyama | 1 | 48 | 1844 | Asia 3281 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | USA_New-York | 1 | 1758 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681H,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Canada_Alberta | 1 | 294 | 4537 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S31P,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,T572I,P621S,H655Y,N679K,P681R,N764K,D796Y,A845X,S939F,Q954H,N969K,P1143L,D614G | Canada_Alberta | 1 | 294 | 4537 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S31P,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,K182R,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,L441R,K444R,V445P,G446S,N450D,L452W,L455S,F456L,N460K,A475V,S477N,T478K,N481K,V483-,E484K,F486P,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,P1143L,V1176F,D614G | Canada_Alberta | 1 | 294 | 4537 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S31P,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,K182R,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,K444R,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q498R,N501Y,Y505H,E554K,A570V,T572I,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,P1143L,V1264L,D614G | USA_New-Jersey | 2 | 774 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,N17X,T19X,R21X,T22X,L24X,P25X,P26X,A27X,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,K150R,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483X,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,T572I,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | USA_Texas_San-Antonio | 1 | 228 | 718 | 12495 | North-America 17273 |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,A435S,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Australia_Queensland | 4 | 835 | 2020 | Oceania 2464 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,S680A,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Australia_Queensland | 1 | 835 | 2020 | Oceania 2464 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,A845S,S939F,Q954H,N969K,V1104L,P1143L,C1235X,D614G | Japan_Gifu | 1 | 182 | 1844 | Asia 3281 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142X,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,A845S,S939F,Q954H,N969K,V1104L,P1143L,C1235X,D614G | Japan_Gifu | 1 | 182 | 1844 | Asia 3281 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211T,L212G,V213-,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Japan_Osaka | 1 | 41 | 1844 | Asia 3281 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | Japan_Fukuoka | 1 | 7 | 1844 | Asia 3281 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | Brazil_Federal-District_Paranoa | 1 | 2 | 55 | 605 | South-America 1199 |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621X,H655X,Q677X,N679X,S680X,P681X,A688X,S704X,N764X,R765X,D796X,A845X,S939F,Q954H,N969K,V1104L,P1143L,D614X | Australia_New-South-Wales_Sydney | 5 | 697 | 697 | 2020 | Oceania 2464 |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655X,N679X,S680X,P681X,A688X,S704X,N764X,R765X,D796X,A845X,S939F,Q954H,N969K,V1104L,P1143L,D614G | Australia_New-South-Wales_Sydney | 1 | 697 | 697 | 2020 | Oceania 2464 |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | Brazil_Tocantins_Palmas | 1 | 41 | 56 | 605 | South-America 1199 |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | Brazil_Rio-de-Janeiro_Niteroi | 1 | 2 | 10 | 605 | South-America 1199 |
| L | 5 | F | L5F,T19I,R21X,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | USA_Colorado | 1 | 912 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403X,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | Hong-Kong | 1 | 167 | Asia 3281 | ||
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356X,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,S680F,P681R,N764K,D796Y,A845S,S939F,Q954H,N969K,V1104L,P1143L,D614G | Slovenia | 1 | 92 | Europe 5391 | ||
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,T572I,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | USA_Rhode-Island | 1 | 106 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Germany_North-Rhine-Westphalia | 1 | 200 | 599 | Europe 5391 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | USA_Iowa | 3 | 154 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,A435S,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796X,A845X,S939X,A942X,Q954X,N969X,V1104L,P1143L,D614G | USA_Florida | 1 | 71 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,N487D,Q493E,Q498R,N501Y,Y505H,E554K,A570V,T572I,P621S,H655Y,Q677X,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,A1174V,D614G | Singapore | 1 | 785 | Asia 3281 | ||
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S31F,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,K182N,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456V,N460K,S477N,N481K,V483-,E484K,F486P,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,Q677H,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,P1143L,D614G | Singapore | 1 | 785 | Asia 3281 | ||
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,C1235X,D614G | Japan_Saitama | 1 | 178 | 1844 | Asia 3281 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,T572I,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,A1174V,D614G | Canada_Ontario | 10 | 3164 | 4537 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Canada_Ontario | 2 | 3164 | 4537 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21X,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,T572I,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | New-Zealand_Auckland | 1 | 174 | 435 | Oceania 2464 | |
| L | 5 | F | L5F,T19I,R21-,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,P85Q,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,T572I,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Canada_Ontario | 1 | 3164 | 4537 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | USA_Hawaii_Honolulu | 1 | 21 | 57 | 12495 | North-America 17273 |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,P85S,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | USA_Utah | 3 | 120 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,T572I,P621S,H655Y,A688X,S704X,N764X,R765X,D796X,A845X,S939X,A942X,Q954X,N969X,V1104L,P1143L,D614G | USA_California | 1 | 2574 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,A688X,S704X,N764X,R765X,D796X,A845X,S939X,A942X,Q954X,N969X,K1086R,V1104L,P1143L,D614G | USA_California | 1 | 2574 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | USA_Illinois_Cook | 1 | 477 | 626 | 12495 | North-America 17273 |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | United-Kingdom_England | 2 | 398 | 1269 | Europe 5391 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S31P,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,K182R,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,K444R,V445H,G446S,N450D,L452W,L455S,F456L,N460K,A475V,S477N,T478K,N481K,V483-,E484K,F486P,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,S680P,P681R,N764K,D796Y,S939F,Q954H,N969K,P1143L,D614G | Singapore | 1 | 785 | Asia 3281 | ||
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | Singapore | 1 | 785 | Asia 3281 | ||
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,N487D,Q493E,Q498R,N501Y,Y505H,E554K,A570V,T572I,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,A1174V,D614G | Singapore | 1 | 785 | Asia 3281 | ||
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,A435S,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655X,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | United-Kingdom_England | 1 | 398 | 1269 | Europe 5391 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,G72R,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | USA_New-York | 1 | 1758 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Canada_Alberta | 1 | 294 | 4537 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | Japan_Miyagi | 2 | 120 | 1844 | Asia 3281 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | USA_Nebraska | 1 | 347 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,N17X,T19X,R21X,T22X,L24X,P25X,P26X,A27X,S31-,S50L,H69-,V70-,G142D,Y144-,F157X,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,T572I,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | USA_New-York_Monroe | 1 | 147 | 1758 | 12495 | North-America 17273 |
| L | 5 | F | T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371X,S373X,S375X,T376X,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Japan_Ehime | 1 | 11 | 1844 | Asia 3281 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142X,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Japan_Nagano | 1 | 67 | 1844 | Asia 3281 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,P85S,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | Canada_Alberta | 1 | 294 | 4537 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | South-Korea | 7 | 338 | Asia 3281 | ||
| L | 5 | F | L5F,N17X,T19X,R21X,T22X,L24X,P25X,P26X,A27X,S31P,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,K182R,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,K444R,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477X,T478X,N481X,V483X,E484X,F486X,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,P1143L,D614G | Russia_Saint-Petersburg_Saint-Petersburg | 1 | 167 | 170 | 176 | Europe 5391 |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | Japan | 1 | 1844 | Asia 3281 | ||
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127X,G142X,Y144X,H146X,K147X,K150X,F157X,R158X,K182X,Q183X,G184X,N185X,F186X,R190X,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796X,A845X,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | USA_New-Jersey | 1 | 774 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Japan_Niigata | 1 | 174 | 1844 | Asia 3281 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403X,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | United-Kingdom_Scotland | 1 | 389 | 1269 | Europe 5391 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954X,N969X,V1104L,P1143L,D614G | USA_Virginia | 1 | 629 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679R,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | USA_New-Jersey | 1 | 774 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,Q183H,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445P,G446S,N450D,L452W,L455S,F456L,N460K,S477N,N481K,V483-,E484K,F486P,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,P1143L,D614G | USA_New-Jersey | 1 | 774 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | USA_District-of-Columbia | 1 | 138 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | USA_Louisiana | 1 | 126 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | USA_New-York_New-York-City | 1 | 454 | 1758 | 12495 | North-America 17273 |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,A435X,N440X,L441X,K444X,V445X,G446X,N450X,L452X,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498X,T500X,N501X,Y505X,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Japan_Nagano | 1 | 67 | 1844 | Asia 3281 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,K150E,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N450D,L452X,L455X,F456X,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498X,T500X,N501X,Y505X,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Japan_Nagano | 1 | 67 | 1844 | Asia 3281 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,A435S,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477X,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | United-Kingdom_Wales | 1 | 452 | 1269 | Europe 5391 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,F186L,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445R,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,K1086R,V1104L,P1143L,D614G | Brazil_Mato-Grosso-do-Sul_Campo-Grande | 1 | 34 | 87 | 605 | South-America 1199 |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Brazil_Mato-Grosso-do-Sul_Ivinhema | 2 | 6 | 87 | 605 | South-America 1199 |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31P,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,K182R,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,K444R,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,P1143L,D614G | Russia_Saint-Petersburg_Saint-Petersburg | 2 | 167 | 170 | 176 | Europe 5391 |
| L | 5 | F | L5F,L24X,P25X,P26X,A27X,S31P,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,K182R,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,K444R,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478R,N481K,V483-,E484K,F486P,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,P1143L,D614G | Russia_Saint-Petersburg_Saint-Petersburg | 1 | 167 | 170 | 176 | Europe 5391 |
| L | 5 | F | L5F,L24-,P25-,P26-,A27S,S31P,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,K182R,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,K444R,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q498R,N501Y,Y505H,E554K,A570V,T572I,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,P1143L,D614G | Russia_Saint-Petersburg_Saint-Petersburg | 1 | 167 | 170 | 176 | Europe 5391 |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S31P,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,K182R,R190S,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,K444R,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q498R,N501Y,Y505H,E554K,A570V,T572I,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,P1143L,D614G | Russia_Saint-Petersburg_Saint-Petersburg | 1 | 167 | 170 | 176 | Europe 5391 |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,Q183H,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445P,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,P1143L,D614G | USA_Minnesota | 1 | 712 | 12495 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,T22N,L24-,P25-,P26-,A27S,S50L,F59S,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346X,K356X,S371F,S373P,T376A,R403K,D405N,R408S,K417N,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Canada_Nova-Scotia | 1 | 98 | 4537 | North-America 17273 | |
| L | 5 | F | L5F,T19I,R21T,L24-,P25-,P26-,A27S,S31-,S50L,H69-,V70-,V127F,G142D,Y144-,F157S,R158G,N211-,L212I,V213G,L216F,H245N,A264D,I332V,G339H,R346T,K356T,S371F,S373P,T376A,R403K,D405N,R408S,K417N,A435S,N440K,V445H,G446S,N450D,L452W,L455S,F456L,N460K,S477N,T478K,N481K,V483-,E484K,F486P,Q493E,Q498R,N501Y,Y505H,E554K,A570V,P621S,H655Y,N679K,P681R,N764K,D796Y,S939F,Q954H,N969K,V1104L,P1143L,D614G | Canada_Alberta | 1 | 294 | 4537 | North-America 17273 |
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