COVID-19 Viral Genome Analysis Pipeline
Enabled by data from
XSpike
eXplore the Spike protein sequence in the SARS CoV-2 virus
Last update: Aug 9, 2022
Delta and Omicron Variants
Global
Wuhan reference
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Evaluating 468103 sequences of length 3346
Sampled from 2022-06-10 to 2022-08-02.
Specified Date Range: ['2022-06-10', '2022-08-09']
Highest entropy sites for: Global
Site Entropy
452 0.7649
70 0.5725
486 0.5606
69 0.5589
493 0.5523
704 0.3772
3 0.2310
76 0.1843
658 0.1677
440 0.1429
346 0.1365
417 0.1159
408 0.1084
1020 0.1023
5 0.0700
164 0.0609
248 0.0563
339 0.0491
1162 0.0475
371 0.0406
144 0.0390
405 0.0375
289 0.0341
68 0.0337
181 0.0336
764 0.0333
444 0.0303
677 0.0291
19 0.0281
157 0.0279
142 0.0266
376 0.0253
547 0.0247
701 0.0246
1264 0.0239
375 0.0239
64 0.0238
147 0.0203
373 0.0198
681 0.0197
1263 0.0192
446 0.0187
153 0.0187
259 0.0185
460 0.0184
255 0.0183
27 0.0183
24 0.0179
670 0.0176
213 0.0165
Most highly correlated site-pairs for: Global
cramerV mutInfo
70 69 0.5000 0.5580
486 493 0.7016 0.5379
70 486 0.4027 0.5293
452 486 0.4906 0.5230
486 69 0.4917 0.5229
70 493 0.6949 0.5197
452 493 0.6907 0.5155
69 493 0.6928 0.5143
452 70 0.4862 0.5108
452 69 0.4849 0.5049
452 704 0.5653 0.3533
70 704 0.3831 0.2046
493 704 0.4703 0.2038
486 704 0.3820 0.2037
69 704 0.3821 0.2036
375 373 0.8750 0.0161
376 373 0.8305 0.0155
376 375 0.7635 0.0174
27 24 0.7218 0.0145
371 373 0.7143 0.0145
339 373 0.7043 0.0095
417 405 0.6724 0.0241
405 376 0.6279 0.0141
371 405 0.5878 0.0147
405 373 0.5783 0.0114
69 68 0.5716 0.0069
405 375 0.5533 0.0113
405 764 0.5489 0.0130
764 373 0.5360 0.0094
408 405 0.5012 0.0227
Most common patterns for local area, where Local = Global
1111
1111111222223333334444444444566667770122
122666774445568145583477770014445689457780062666
35947489062473741385999613565870462063780711440234
VLTLAWIHVTGYKMFNGVYSTVGRSSSTDRKNKGLNFQTNIQPASNAPPV Global UK Eu-UK NAmer Asia Africa SAmer Ocean Local Exact Pct [Context]
468103 61780 125513 195655 57082 2027 13052 12995 422158 <----------- Totals
..I-S..--.D......G....D.FPFANSNK..R.V.....H..K.... 212885 32199 71802 79679 20530 780 2499 5396 212885 182153 85% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFANSNK..Q..R....H.LK.... 43780 1882 2868 37183 1274 21 210 342 43780 37696 86% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......G....D.FPFANSNK.....R....H..K.... 25315 1460 5356 5602 10000 188 556 2153 25315 18124 71% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
G.I-S..--.D......G....D.FPFANSNK..R.V.....H..K.... 21995 2777 2773 13228 2164 155 400 499 21995 18782 85% [V3G,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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--ID......G....D.FPFANSNK..R.V.....H..K.... 18295 550 683 16321 576 5 45 115 18295 15444 84% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..R.V..S..H..K.... 8817 2212 1656 3578 636 66 447 222 8817 7457 84% [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,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..R.V.....H..KS... 7684 441 1358 1204 4617 6 4 54 7684 6891 89% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSN...R.V.....H..K.... 5011 0 2953 1011 354 3 690 0 5011 4234 84% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....DTFPFANSNK..R.V..S..H..K.... 4849 737 477 3432 59 9 51 84 4849 4329 89% [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,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D....K.G....D.FPFANSNK..Q..R....H.LK.... 4317 202 236 3775 76 0 16 12 4317 3807 88% [T19I,L24-,P25-,P26-,A27S,G142D,N164K,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......G....D.FPFANSTK.....R....H..K.... 3020 447 578 896 957 6 47 89 3020 2400 79% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+K417T
.FI-S..--.D......G....D.FPFANSNK..R.V.....H..K.... 2937 628 1053 948 222 10 39 37 2937 2496 84% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFANSNK..M..R....H..K.... 2877 148 903 883 685 26 192 40 2877 1985 68% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452M,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452M
..I-S..--.D......G....D.FPFAN.NK..R.V.....H..K.... 2394 0 680 209 669 5 831 0 2394 2003 83% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK..R.V.....H..K.L.. 2189 667 636 765 102 3 7 9 2189 1819 83% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1162L] Omicron_BA.4andBA.5
..I-S..--.D......G...ID.FPFANSNK..R.V.....H..K.... 1902 107 1317 434 32 3 0 9 1902 1660 87% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D-.....G....D.FPFANSNK..R.V.....H..K.... 1577 494 394 505 135 9 11 29 1577 1253 79% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....N.FPFANSNK.....R....H..K.... 1472 0 5 0 1467 0 0 0 1472 1301 88% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339N,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFANSNK.....R...EH..K.... 1434 0 0 1 1433 0 0 0 1434 1203 83% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,Q677E,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.T...D......G....D.FPFANSNK.....R....H..K.... 1273 129 454 208 137 14 21 310 1273 992 77% [T19I,L24-,P25-,P26-,A27S,I68T,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D......G....DTFPFANSNK..R.V.....H..K.... 1208 258 626 247 54 7 12 4 1208 1066 88% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......GN...DTFPFANSNK.....R....H..K.... 1164 86 57 253 711 2 0 55 1164 986 84% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,Y248N,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-SR....D......G....D.FPFANSNK.....R....H..K.... 917 50 453 112 238 4 26 34 917 774 84% [T19I,L24-,P25-,P26-,A27S,W64R,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D......G....D.FPFAN.NK..Q..R....H.LK.... 901 1 43 204 88 0 565 0 901 747 82% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
G.I-S..--.D......G....D.FPFANSNK..R.V...V.H..K.... 871 111 240 461 29 5 0 25 871 748 85% [V3G,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,D614G,H655Y,I670V,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G..A.D.FPFANSNK..R.V.....H..K.... 838 356 118 329 24 2 4 5 838 726 86% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,T259A,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..R.V.....HS.K.... 750 14 38 683 12 0 0 3 750 593 79% [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,D614G,H655Y,N679K,P681H,A701S,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..-L.D......G....D.FPFANSNK..R.V.....H..K.... 742 0 729 10 1 1 1 0 742 643 86% [T19I,L24-,P25-,P26-,A27S,H69-,V70L,S71X,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--........G....D.FPFANSN...R.V.....H..K.... 709 0 401 115 109 2 82 0 709 633 89% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......GS...D.FPFANSNK.....R....H..K.... 692 59 201 342 68 0 9 13 692 271 39% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,Y248S,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D......G....D.FPFANSN......R....H..K.... 683 0 351 123 54 1 154 0 683 454 66% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D.....VG....D.FPFANSNK..R.V.....H..K.... 644 94 131 388 13 0 16 2 644 587 91% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G181V,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D..I...G....D.FPFANSNK..R.V.....H..K.... 639 106 213 294 21 2 1 2 639 357 55% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,M153I,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFANSN...Q..R....H.LK.... 633 0 130 381 24 0 98 0 633 536 84% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK.....R....H..K.... 610 81 164 235 95 0 12 23 610 516 84% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
.FI-S.....D......G....D.FPFANSNK..Q..R....H.LK.... 597 29 50 491 21 0 5 1 597 504 84% [L5F,T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S..--.D......G....D.FPFANSNK..R.V.....H..K..Q. 566 276 195 70 19 0 0 6 566 461 81% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1263Q] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFANSNK..Q..R....H.LK...L 507 13 37 444 6 1 2 4 507 473 93% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K,V1264L] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S..--.D.....AG....D.FPFANSNK..R.V.....H..K.... 505 351 107 33 9 0 2 3 505 441 87% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G181A,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
G.I-S..--.D......G....D.FPFANSN...R.V.....H..K.... 500 0 123 161 49 2 165 0 500 419 83% [V3G,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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
...-S..--.D......G....D.FPFANSNK..R.V.....H..K.... 482 1 251 3 227 0 0 0 482 425 88% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK..R.V........K.... 462 0 457 1 3 0 0 1 462 246 53% [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,D614G,H655Y,N679K,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....DIFPFANSNK..R.V.....H..K.... 450 40 338 34 25 1 8 4 450 368 81% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,R346I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G.F..D.FPFANSNK..R.V.....H..K.... 429 195 119 73 32 2 7 1 429 370 86% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,S255F,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFAN.......V.....H..K.... 421 0 1 417 0 0 3 0 421 372 88% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
G.I-S..--.D......G....D.FPFAN.NK..R.V.....H..K.... 420 0 19 57 133 0 211 0 420 340 80% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.FI-S.....D......G....D.FPFANSNK.....R....H..K.... 381 19 87 100 147 0 13 15 381 286 75% [L5F,T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D......G....D.FPFAN........R....H.LK.... 381 0 0 381 0 0 0 0 381 314 82% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S.....D...L..G....D.FPFANSNK.....R....H..K.... 374 28 39 16 283 2 2 4 374 325 86% [T19I,L24-,P25-,P26-,A27S,G142D,F157L,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D......G....D..PFANSNK..R.V.....H..K.... 365 27 216 52 10 0 60 0 365 292 80% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFANSNK.....R....H.LK.... 362 6 55 77 66 0 7 151 362 184 50% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,R357K,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--ID......G....D.FPFANSN...R.V.....H..K.... 351 0 29 312 3 0 7 0 351 304 86% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,T76I,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....DTFPFANSNK.....R....H..K.... 346 36 171 67 61 1 4 6 346 279 80% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D......G....D.FPFANSNK..R.V.....H..K...L 341 54 91 133 58 0 2 3 341 313 91% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,V1264L] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..R.V..S..HV.K.... 336 33 9 287 6 0 0 1 336 276 82% [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,D614G,H655Y,N658S,N679K,P681H,A701V,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..R.V.I...H..K.... 334 40 86 90 17 0 3 98 334 305 91% [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,T547I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSN...R.V..S..H..K.... 326 0 93 54 10 3 166 0 326 289 88% [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,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFAN.NK.....R....H..K.... 316 0 41 20 79 0 176 0 316 210 66% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFAN.NK..R.V.....H..KS... 311 0 77 4 229 0 1 0 311 260 83% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S]
..I-S..--.D......G....D.FPFA........V.....H..K.... 305 0 0 305 0 0 0 0 305 272 89% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......GN...D.FPFANSNK.....R....H..K.... 293 7 126 125 23 4 2 6 293 181 61% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,+247SGE,Y248N,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D......G....D.FPFANSNKN.R.V.....H..K.... 284 32 93 111 31 7 5 5 284 237 83% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....DSFPFANSNK..R.V..S..H..K.... 278 135 85 32 10 12 0 4 278 255 91% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,R346S,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....DTFPFANSNK..M..R....H..K.... 272 20 68 66 88 0 1 29 272 229 84% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452M,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452M
..I-S.....D.E.L..G....H.FPFANSNK.S.K......H..K.... 267 22 8 87 123 0 0 27 267 179 67% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,G257S,G339H,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,N460K,S477N,T478K,E484A,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G.F..D.FPFANSNK.....R....H..K.... 253 9 26 136 68 2 2 10 253 220 86% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,S255F,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
G.I-S..--.D......G....DTFPFANSNK..R.V.....H..K.... 250 74 24 132 6 11 0 3 250 215 86% [V3G,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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....D.YPFANSNK.....R....H..K.... 224 13 144 17 44 0 0 6 224 147 65% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371Y,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFANSNK..R..R....H..K.... 222 14 98 51 51 0 4 4 222 155 69% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....DSFPFANSNK..R.V.....H..K.... 211 10 12 176 6 0 0 7 211 147 69% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,R346S,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..R.V.....HV.K.... 200 16 51 128 5 0 0 0 200 176 88% [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,D614G,H655Y,N679K,P681H,A701V,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D...L..G....D.FPFANSNK..R.V.....H..K.... 195 53 42 88 9 0 1 2 195 161 82% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,F157L,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..R.V.I...H..KS... 194 8 27 57 93 2 1 6 194 147 75% [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,T547I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNKT.R.V.....H..K.... 191 26 26 129 5 0 5 0 191 165 86% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFANSNK..R.V.....H..K.... 187 3 103 58 17 1 3 2 187 150 80% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..R.V.....H..K..L. 185 45 47 66 23 0 1 3 185 163 88% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1263L] Omicron_BA.4andBA.5
..I-SL....D......G....D.FPFANSNK.....R....H..K.... 179 8 39 91 40 0 0 1 179 120 67% [T19I,L24-,P25-,P26-,A27S,W64L,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D......G....D.FPFANSNKR.R.V.....H..K.... 177 17 60 81 14 1 2 2 177 142 80% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444R,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..L-S..--.D......G....D.FPFANSNK..R.V.....H..K.... 175 55 56 51 8 1 1 3 175 157 89% [T19L,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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......GH...D.FPFANSNK.....R....H..K.... 174 26 76 45 21 0 6 0 174 79 45% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,Y248H,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D......G....D.FPFANSNK..R.V.....H....... 174 2 99 3 64 0 6 0 174 76 43% [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,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S.....D-.....G....D.FPFANSNK..Q..R....H.LK.... 174 8 13 151 1 0 1 0 174 93 53% [T19I,L24-,P25-,P26-,A27S,G142D,Y144-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......G....D.FPFA.........R....H.LK.... 174 0 0 174 0 0 0 0 174 152 87% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK..R.V.K...H..K.... 174 25 27 74 42 0 2 4 174 144 82% [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,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.FI-S..--ID......G....D.FPFANSNK..R.V.....H..K.... 173 3 6 154 9 0 0 1 173 155 89% [L5F,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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D.....EG....D.FPFANSNK..R.V..S..H..K.... 172 25 15 11 20 0 0 101 172 147 85% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G181E,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K,Q1201L] Omicron_BA.4andBA.5
..I-S.....D...L..G....D.FPFANSNK..Q..R....H.LK.... 167 13 11 140 1 0 1 1 167 128 76% [T19I,L24-,P25-,P26-,A27S,G142D,F157L,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......G....D.FPFANSNK..Q..R....H..K...L 162 9 137 10 1 0 4 1 162 142 87% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,V1264L]
..I-S..--.D......E....D.FPFANSNK..R.V.....H..K.... 157 31 40 76 7 1 0 2 157 139 88% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213E,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK..RSV.....H..K.... 150 26 37 81 5 0 0 1 150 139 92% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,N460S,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..R.I.....H..K.... 150 8 78 35 19 0 9 1 150 139 92% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486I,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--........G....D.FPFANSNK..R.V.....H..K.... 140 0 67 24 28 9 11 1 140 115 82% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFANST......R....H..K.... 139 0 61 12 60 1 5 0 139 100 71% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G.F..D.FPFANSNK..Q..R....H.LK.... 138 14 8 113 2 0 0 1 138 93 67% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,S255F,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S..--.D......G..................V.....H....... 138 0 0 138 0 0 0 0 138 95 68% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFAN.NK..R.V..S..H..K.... 134 0 12 8 25 1 88 0 134 120 89% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFANSN...M..R....H..K.... 134 0 28 10 5 0 91 0 134 109 81% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452M,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452M
..I-S..--.D......G....D.FPFA........V.....H....... 133 0 0 133 0 0 0 0 133 120 90% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK..RIV.....H..K.... 132 34 88 8 1 0 1 0 132 116 87% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,N460I,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--ID......G....D.FPFAN.NK..R.V.....H..K.... 131 0 4 66 16 0 45 0 131 109 83% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,T76I,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S............G....D.FPFANSN......R....H..K.... 124 0 87 19 2 0 16 0 124 91 73% [T19I,L24-,P25-,P26-,A27S,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK..R.V.....H..K.S.. 123 15 31 66 5 0 0 6 123 116 94% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1162S] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..R.V....HH..K.... 120 34 38 34 10 1 0 3 120 100 83% [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,D614G,H655Y,Q677H,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..R.V.....H.LK.... 117 15 43 49 7 0 0 3 117 96 82% [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,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSN...R.V.....H..KS... 114 0 45 9 59 0 1 0 114 105 92% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S]
..I-S.....D...S..G....D.FPFANSNK.....R....H..K.... 108 7 39 14 37 1 8 2 108 82 75% [T19I,L24-,P25-,P26-,A27S,G142D,F157S,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D......G....D.FPFANS.K..R.V.....H..K.... 108 0 51 35 22 0 0 0 108 92 85% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D...S..G....D.FPFANSTKN....R....H..K.... 108 0 1 4 103 0 0 0 108 81 75% [T19I,L24-,P25-,P26-,A27S,G142D,H146-,F157S,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,N440K,K444N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+K417T
..I-S.....D......G...................R....H....... 108 0 0 108 0 0 0 0 108 65 60% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
...-S..--.D......G....D.FPFANSNK..R.V.I...H..KS... 107 0 0 0 106 0 0 1 107 90 84% [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,T547I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S]
..I-S..--.D......G....D.............V.....H....... 107 0 0 107 0 0 0 0 107 84 78% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
G.I-S..--.D-.....G....D.FPFANSNK..R.V.....H..K.... 106 10 11 59 16 0 10 0 106 93 87% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFANSNK..Q..R....H..K.... 104 5 33 55 7 0 3 1 104 81 77% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK.DR.V.....H..K.... 98 48 29 16 3 0 2 0 98 78 79% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446D,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..R.V.....H..KV... 96 11 40 22 6 0 0 17 96 86 89% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020V] Omicron_BA.4andBA.5
..I-S.....D-...K.G....D.FPFANSNK..Q..R....H.LK.... 96 15 3 76 2 0 0 0 96 84 87% [T19I,L24-,P25-,P26-,A27S,G142D,Y144-,N164K,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......G....D..PFANSNK.....R....H..K.... 93 8 15 34 3 0 33 0 93 51 54% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
G.I-S..--.D......G....DIFPFANSNK..R.V.....H..K.... 93 1 8 80 0 0 0 4 93 71 76% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,R346I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.FI-S..--.D......G....D.FPFANSN...R.V.....H..K.... 93 0 46 11 6 0 30 0 93 54 58% [L5F,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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK.SR.V.....H..K.... 91 9 32 41 7 0 2 0 91 79 86% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......GH...D.FPFANSNK..Q..R....H.LK.... 90 3 10 77 0 0 0 0 90 85 94% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,Y248H,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......G....D.FPFANSNK.....R....H..K.S.. 89 5 15 56 7 3 1 2 89 71 79% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1162S] Omicron_BA.2
..I-S..--.D......G..I.D.FPFANSNK..R.V.....H..K.... 88 6 14 62 6 0 0 0 88 76 86% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,T259I,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFANSNK.....R....H..K...L 87 10 38 10 11 11 4 3 87 71 81% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,V1264L] Omicron_BA.2
..I-S.....D......G....D.FPFA.........R....H....... 86 0 0 86 0 0 0 0 86 67 77% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S.....D......GS...D.FPFANSTKN....R....H..K.... 85 0 3 14 62 0 0 6 85 72 84% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,S247N,Y248S,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,N440K,K444N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+K417T
..I-S..--.D......G....D.FPFANSNK..Q..R....H.LK.... 83 2 8 67 0 0 6 0 83 77 92% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......GN...DTFPFANSN......R....H..K.... 83 0 5 10 67 0 1 0 83 69 83% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,Y248N,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D......G....D.FPFANSNK.....R.......K.... 82 0 78 1 0 0 0 3 82 36 43% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,N764K,D796Y,Q954H,N969K]
..I-S..--ID......G....D.FPFAN.......V.....H..K.... 81 0 0 81 0 0 0 0 81 77 95% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,T76I,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK..R.V..S..H..KS... 78 2 71 5 0 0 0 0 78 62 79% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G261V,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S] Omicron_BA.4andBA.5
..I.-..--.D......G....D.FPFANSNK..R.V.....H..K.... 78 7 29 38 2 0 2 0 78 62 79% [T19I,P25-,P26-,A27-,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFANSIK.....R....H..K.... 77 2 25 23 25 0 0 2 77 62 80% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417I,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.T...D......G....D.FPFANSNK.....R....H..K...L 76 3 54 17 2 0 0 0 76 72 94% [T19I,L24-,P25-,P26-,A27S,I68T,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,V1264L] Omicron_BA.2
..I-S.....D.E....G....D.FPFANSNK.....R....H..K.... 76 2 8 7 58 0 1 0 76 31 40% [L8F,T19I,L24-,P25-,P26-,A27S,G142D,K147E,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,N450D,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,G1219V] Omicron_BA.2
..I-S............G....D.FPFANSN...Q..R....H.LK.... 76 0 23 39 4 0 10 0 76 72 94% [T19I,L24-,P25-,P26-,A27S,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNKM.R.V.....H..K.... 75 13 25 22 13 0 2 0 75 63 84% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444M,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.FI-S..--.D......G....D.FPFANSNK..R.V..S..H..K.... 74 5 8 35 2 0 16 8 74 63 85% [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,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--ID......G....D.FPFA........V.....H..K.... 74 0 0 74 0 0 0 0 74 66 89% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,T76I,G142D,V213G,G339D,S371F,S373P,S375F,T376A,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--ID......G....D.FPFANSNK..R.V....HH..K.... 73 15 0 58 0 0 0 0 73 65 89% [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,D614G,H655Y,Q677H,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
G.I-S..--.D......G....D.FPFAN.......V.....H..K.... 72 0 0 72 0 0 0 0 72 66 91% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
...-S.....D......G....D.FPFANSTK.....R....H..K.... 72 0 4 0 68 0 0 0 72 54 75% [L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFAN.....R.V.....H..K.... 72 0 0 72 0 0 0 0 72 65 90% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
...-S.....D......G....D.FPFANSNK.....R....H..K.... 71 0 25 1 45 0 0 0 71 52 73% [L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.......--.D-..........DKLPF...NK.S...RK...H..K.... 68 5 15 17 24 1 3 3 68 41 60% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,R346K,S371L,S373P,S375F,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] Omicron_BA.1.1
..I-S.....D......G....D.FPFANSNK..Q..R....H.LK.L.. 68 1 9 52 6 0 0 0 68 55 80% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K,P1162L] Omicron_BA.2+L452Q+S704L_BA.2.12.1
.FI-S..--.D......G....D.FPFANSNK..R.V.....H..KS... 66 4 4 8 50 0 0 0 66 61 92% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S] Omicron_BA.4andBA.5
..I-S..--.D......G....DTFPFANSN...R.V..S..H..K.... 66 0 11 44 0 0 11 0 66 56 84% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--ID-.....G....D.FPFANSNK..R.V.....H..K.... 65 0 5 58 2 0 0 0 65 57 87% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,T76I,G142D,Y144-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D...........D.FPFANSNK.....R....H..K.... 64 17 4 38 2 0 1 2 64 41 64% [T19I,L24-,P25-,P26-,A27S,G142D,+212T,+213GGG,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,T1231S]
..I-S..--.D......G....D.FPFANSN.....V.....H..K.... 62 0 1 56 0 0 5 0 62 53 85% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I.......D.E.L..G....H.FPFANSNK.S.K......H..K.... 62 0 0 0 62 0 0 0 62 46 74% [T19I,G142D,K147E,W152R,F157L,I210V,V213G,G257S,G339H,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,N460K,S477N,T478K,E484A,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK..R.......H..K.... 62 10 12 25 13 1 0 1 62 16 25% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G......FPFANSNK..R.V.....H..K.... 61 3 42 16 0 0 0 0 61 50 81% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--........G....D.FPFANSN...R.V..S..H..K.... 60 0 21 6 1 0 32 0 60 58 96% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFAN........R....H..K.... 60 0 0 59 0 0 1 0 60 50 83% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFANSNK..Q..R....H.LK.S.. 59 1 22 36 0 0 0 0 59 51 86% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K,P1162S] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S..--.D.I....G....D.FPFANSNK..R.V.....H..K.... 58 11 33 8 3 1 0 2 58 56 96% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,K147I,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFANSNK.....RK...H..K.... 57 1 7 8 37 0 0 4 57 28 49% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D......G....D.FPFAN..K..R.V.....H..K.... 57 0 6 49 2 0 0 0 57 50 87% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--I.......G....D.FPFANSN...R.V.....H..K.... 57 0 3 49 3 0 2 0 57 52 91% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,T76I,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.FI-S.....D......G....N.FPFANSNK.....R....H..K.... 57 0 0 0 57 0 0 0 57 36 63% [L5F,T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339N,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFAN.....Q..R....H.LK.... 56 0 0 56 0 0 0 0 56 45 80% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S..--.D......GH...D.FPFANSNK..R.V.....H..K.... 56 16 8 18 7 0 1 6 56 46 82% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,Y248H,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFA.........R....H..K.... 56 0 0 56 0 0 0 0 56 43 76% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-SR....D......G....D.FPFANSN......R....H..K.... 55 0 37 3 5 0 10 0 55 41 74% [T19I,L24-,P25-,P26-,A27S,W64R,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D......G....D.FPFANSNK.....R....H..K.L.. 55 3 20 8 13 0 1 10 55 40 72% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1162L] Omicron_BA.2
..I-S..--.D......G....D.FPFAN.......V.....H....... 55 0 0 52 0 0 3 0 55 45 81% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK..R..R....H..K.... 53 0 12 41 0 0 0 0 53 37 69% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..IS-..--.D......G....D.FPFANSNK..R.V.....H..K.... 53 26 17 8 0 0 2 0 53 15 28% [T19I,L24S,P25-,P26H,A27-,Y28-,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....DKFPFANSNK..R.V.....H..K.... 53 8 9 33 1 1 1 0 53 44 83% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,R346K,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....D..............R....H....... 53 0 0 53 0 0 0 0 53 36 67% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S.....D.E....G....D.FPFANSNK..Q..R....H.LK.... 52 0 3 43 6 0 0 0 52 49 94% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
G.I-S..--.D......G....D.FPFANSNK..R.V..D..H..K.... 52 2 5 2 41 0 0 2 52 42 80% [V3G,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,D614G,H655Y,N658D,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFANSNK.....R...HH..K.... 52 0 5 11 35 0 0 1 52 35 67% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,Q677H,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D......G...ID.FPFANSN...R.V.....H..K.... 51 0 45 5 1 0 0 0 51 44 86% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,V289I,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFANSNK..........H..K.... 51 2 19 11 12 0 3 4 51 19 37% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D....K.G....D.FPFANSN...Q..R....H.LK.... 51 0 8 29 0 0 14 0 51 39 76% [T19I,L24-,P25-,P26-,A27S,G142D,N164K,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S..--.D-.I...G....D.FPFANSNK..R.V.....H..K.... 51 13 3 34 1 0 0 0 51 45 88% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,M153I,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....DTFPFANSNK..Q..R....H.LK.... 50 4 3 42 1 0 0 0 50 45 90% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S..--.D......G....D.FPF.NSNK..R.V.....H..K.... 49 0 0 0 2 0 0 47 49 38 77% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.T...D......G....DTFPFANSNK.....R....H..K.... 49 4 15 4 9 1 0 16 49 46 93% [T19I,L24-,P25-,P26-,A27S,I68T,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
.FI-S..--.D......G...ID.FPFANSNK..R.V.....H..K.... 49 6 39 3 1 0 0 0 49 33 67% [L5F,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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
G.I-S..--........G....D.FPFANSN...R.V.....H..K.... 49 0 19 20 1 0 9 0 49 45 91% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.II-S..--.D......G....D.FPFANSNK..R.V.....H..K.... 48 0 48 0 0 0 0 0 48 46 95% [L5I,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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......GD...D.FPFANSNK.....R....H..K.... 47 2 8 21 3 0 12 1 47 16 34% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,+247SAV,Y248D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
...-S.....D.E.L..G....H.FPFANSNK.S.K......H..K.... 47 0 0 0 47 0 0 0 47 36 76% [L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,G257S,G339H,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,N460K,S477N,T478K,E484A,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFAN.NK..M..R....H..K.... 46 0 8 2 7 0 29 0 46 36 78% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452M,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFANSTKN....R....H..K.... 46 11 0 23 12 0 0 0 46 21 45% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,N440K,K444N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+K417T
..I-S.....D....H.G....D.FPFANSNK..Q..R....H.LK.... 46 1 39 6 0 0 0 0 46 33 71% [T19I,L24-,P25-,P26-,A27S,G142D,N164H,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S..--.D......G....D.FPFAN.N...R.V.....H..K.... 46 0 0 42 4 0 0 0 46 41 89% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK..R.V.IS..H..K.... 45 25 10 8 2 0 0 0 45 38 84% [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,T547I,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..R.V....RH..K.... 45 1 21 23 0 0 0 0 45 42 93% [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,D614G,H655Y,Q677R,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.FI-S.....D......G....D.FPFANSTK.....R....H..K.... 44 4 5 14 20 0 0 1 44 43 97% [L5F,T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+K417T
..I-S.....D......G....D..PFANSNK..Q..R....H.LK.... 44 0 7 35 0 0 2 0 44 27 61% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFAN.N.....V.....H..K.... 44 0 0 44 0 0 0 0 44 39 88% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFANSN......R....H.LK.... 43 0 4 39 0 0 0 0 43 36 83% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D....K.G....D.FPFAN.NK..Q..R....H.LK.... 43 0 2 17 4 0 20 0 43 39 90% [T19I,L24-,P25-,P26-,A27S,G142D,N164K,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFANSNKR.Q..R....H.LK.... 43 0 1 40 0 0 2 0 43 41 95% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444R,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S..--.D.....RG....D.FPFANSNK..R.V.....H..K.... 43 2 16 22 3 0 0 0 43 35 81% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G181R,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFAN........R....H....... 43 0 0 43 0 0 0 0 43 37 86% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
.......--.D.E....G....DKFPFANSNK...K......H..K.... 42 1 40 1 0 0 0 0 42 37 88% [H69-,V70-,G142D,K147E,V213G,G339D,R346K,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,N460K,S477N,T478K,E484A,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,H1101Y]
..I-S.....D......G....D.FPFANSNK.....R....H..K..L. 42 3 13 13 11 1 0 1 42 23 54% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1263L] Omicron_BA.2
..I-S.....D......G....D.FPFANSNK..Q..R....HVLK.... 42 3 2 37 0 0 0 0 42 40 95% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,A701V,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......G....D.FPFANSNK..Q.......H.LK.... 42 0 3 39 0 0 0 0 42 23 54% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
G.I-S..--.D......G....D.FPFA........V.....H..K.... 42 0 0 42 0 0 0 0 42 40 95% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK.SR.V.I...H..KS... 41 0 1 7 31 0 0 2 41 36 87% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,T547I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S] Omicron_BA.4andBA.5
..I-S..--.D......G....D..PFA........V.....H....... 41 0 0 41 0 0 0 0 41 36 87% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S373P,S375F,T376A,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFANSNK..Q..R....H.LK..L. 40 0 7 31 2 0 0 0 40 28 70% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K,P1263L] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......G....D.FPFANSNKN.Q..R....H.LK.... 40 0 0 40 0 0 0 0 40 31 77% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444N,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S..--.D..V...G....D.FPFANSNK..R.V.....H..K.... 40 5 6 23 4 0 0 2 40 34 85% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,K150N,M153V,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.FI-S.....D....K.G....D.FPFANSNK..Q..R....H.LK.... 39 2 2 35 0 0 0 0 39 37 94% [L5F,T19I,L24-,P25-,P26-,A27S,G142D,N164K,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S..--.D......G....D.FPFANSNK..R.V..S..H.LK.... 39 29 2 5 3 0 0 0 39 25 64% [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,D614G,H655Y,N658S,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D.E....G....D.FPFANSTKN....R....H..K.... 39 0 1 2 36 0 0 0 39 35 89% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,N440K,K444N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,I692L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+K417T
.FI-S.....D......G....D.FPFANSNK..M..R....H..K.... 37 2 13 17 3 0 2 0 37 25 67% [L5F,T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452M,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452M
..I-S.....D......G....D.FPFANSNK.....R....H....... 37 0 3 3 29 0 1 1 37 16 43% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S..--........G..................V.....H....... 37 0 0 37 0 0 0 0 37 19 51% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,V213G,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S.T...D......G....D.FPFANSN......R....H..K.... 36 0 28 2 1 0 5 0 36 28 77% [T19I,L24-,P25-,P26-,A27S,I68T,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D......G....D.FPFANSNK.SQ..R....H.LK.... 36 0 2 20 12 0 2 0 36 34 94% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..R.......D...-...................R.......R....... 35 3 7 8 16 0 0 1 35 15 42% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..I-S.....D......GS...D.FPFAN.NK.....R....H..K.... 35 0 6 1 4 0 24 0 35 19 54% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,Y248S,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,E1202Q]
.FI-S..--.D......G....D.FPFAN.NK..R.V.....H..K.... 35 0 7 0 13 0 15 0 35 32 91% [L5F,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I--..--.D......G....D.FPFANSNK..R.V.....H..K.... 35 1 0 34 0 0 0 0 35 17 48% [T19I,L24-,P25-,A27-,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D.N....G....D.FPFANSNK..R.V.....H..K.... 35 3 19 11 1 0 0 1 35 27 77% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,K147N,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I.......D......G....D.FPFANSTK.....R....H..K.... 34 0 1 0 33 0 0 0 34 19 55% [T19I,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+K417T
.FI-S..--.D......G....DTFPFANSNK..R.V..S..H..K.... 33 3 5 24 0 0 0 1 33 31 93% [L5F,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,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D.....EG....D.FPFANSNK..R.V.....H..K.... 33 2 18 7 2 0 0 4 33 31 93% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G181E,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.FI-S..--.D-.....G....D.FPFANSNK..R.V.....H..K.... 33 13 2 7 10 0 0 1 33 32 96% [L5F,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....DTFPFAN.NK..R.V..S..H..K.... 33 0 2 7 1 0 23 0 33 33 100% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....DTFPFANSTK.....R....H..K.... 32 8 6 6 12 0 0 0 32 17 53% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417T,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+K417T
..I-S.....D......G....D.FPFAN..K..Q..R....H.LK.... 32 0 0 31 1 0 0 0 32 24 75% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-SR....D......G....D.FPFANSNK..Q..R....H.LK.... 32 0 2 30 0 0 0 0 32 25 78% [T19I,L24-,P25-,P26-,A27S,W64R,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......G....D.FPFANSNK..Q..R....H.LKS... 32 5 5 22 0 0 0 0 32 21 65% [T19I,L24-,P25-,P26-,A27S,G142D,K150N,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K,A1020S] Omicron_BA.2+L452Q+S704L_BA.2.12.1
G.I-S..-L.D......G....D.FPFANSNK..R.V.....H..K.... 32 0 25 7 0 0 0 0 32 28 87% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70L,S71X,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D..V...G....D.FPFANSNK.....R....H..K.... 31 1 3 2 24 0 0 1 31 27 87% [T19I,L24-,P25-,P26-,A27S,G142D,M153V,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D......G..A.D.FPFANSNK..R.V.....H..K.L.. 31 30 0 1 0 0 0 0 31 30 96% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,T259A,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1162L] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..R.V..S..R..K.... 31 0 0 31 0 0 0 0 31 27 87% [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,D614G,H655Y,N658S,N679K,P681R,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK.VR.V.....H..K.... 31 10 8 9 4 0 0 0 31 26 83% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446V,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S............G...................R....H....... 31 0 0 31 0 0 0 0 31 13 41% [T19I,L24-,P25-,P26-,A27S,V213G,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
...-S..--.D......G....D.FPFANSNK.SR.V.I...H..KS... 31 0 0 0 31 0 0 0 31 26 83% [L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,T547I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S]
..I-S..--ID......G..................V.....H....... 31 0 0 31 0 0 0 0 31 23 74% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,T76I,G142D,V213G,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFAN.TK.....R....H..K.... 30 0 8 8 11 0 3 0 30 25 83% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417T,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
G.I-S..--.D......G....D.FPFANSNK..R.V.....H..K..L. 30 8 3 11 2 0 1 5 30 29 96% [V3G,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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1263L] Omicron_BA.4andBA.5
..I-S.....D....K.G....D.FPFAN........R....H.LK.... 30 0 0 30 0 0 0 0 30 26 86% [T19I,L24-,P25-,P26-,A27S,G142D,N164K,V213G,G339D,S371F,S373P,S375F,T376A,D405N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S..--ID......G....D.FPFA........V.....H....... 30 0 0 30 0 0 0 0 30 23 76% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,T76I,G142D,V213G,G339D,S371F,S373P,S375F,T376A,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S..--.D......G....D.....N.NK..R.V.....H..K.... 30 0 30 0 0 0 0 0 30 22 73% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,D405N,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D-.....G....D.FPFANSNK.....R....H..K.... 29 2 11 4 3 0 0 9 29 12 41% [T19I,L24-,P25-,P26-,A27S,G142D,Y144-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D.....VG....D.FPFANSNK..Q..R....H.LK.... 29 0 2 26 0 0 0 1 29 20 68% [T19I,L24-,P25-,P26-,A27S,G142D,G181V,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
G.I-S..--.D.E....G....N.FPFANSNK..R.V.....H..K.... 29 2 0 27 0 0 0 0 29 28 96% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,K147E,V213G,G339N,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D..I...G....D.FPFANSNK.....R....H..K.... 28 0 5 10 10 0 1 2 28 22 78% [T19I,L24-,P25-,P26-,A27S,G142D,M153I,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D......G....D.FPFANSTK.....R....H..K.... 28 2 11 3 10 1 0 1 28 23 82% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,S71F,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,N440K,S477N,T478R,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....Y.FPFANSNK..R.V.....H..K.... 28 9 1 16 1 0 1 0 28 25 89% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339Y,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFANSNK..Q..RI...H.LK.... 28 2 0 26 0 0 0 0 28 25 89% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,T547I,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S..--.D-.....G....D.FPFANSN...R.V.....H..K.... 28 0 13 7 3 0 5 0 28 22 78% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D...S..G....N.FPFANSNK.....R....H..K...M 28 0 0 0 28 0 0 0 28 28 100% [T19I,L24-,P25-,P26-,A27S,G142D,F157S,V213G,G339N,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,V1264M]
.FI-S..--.D..I...G....D.FPFANSNK..R.V.....H..K.... 27 0 18 9 0 0 0 0 27 17 62% [L5F,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,M153I,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,E1258Q] Omicron_BA.4andBA.5
..I-S..--.D-.....G....D.FPFANSNK..R.V.....H..KS... 27 1 7 9 8 0 0 2 27 23 85% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFANS.K..Q..R....H.LK.... 27 0 2 24 1 0 0 0 27 17 62% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK....V.....H..K.... 27 0 10 10 4 0 3 0 27 20 74% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--ID......G....D.FPFANSNK..R.V.....H..K.L.. 27 6 1 20 0 0 0 0 27 24 88% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1162L] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..Q.V.....H..K.... 27 1 5 8 12 1 0 0 27 25 92% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.FI-S.V--.D......G....D.FPFANSNK..R.V.....H..K.... 27 2 2 23 0 0 0 0 27 26 96% [L5F,T19I,L24-,P25-,P26-,A27S,I68V,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..R.V.....H..KS..L 26 0 0 0 26 0 0 0 26 24 92% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S,V1264L] Omicron_BA.4andBA.5
..I-S.....D......G....N.FPFANSNK.....R....H..K.S.. 26 0 0 0 26 0 0 0 26 25 96% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339N,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1162S]
..I-S.....D......G....D.FPFAN.N......R....H.LK.... 26 0 0 26 0 0 0 0 26 19 73% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S..--ID......G....D.FPFANSNKR.R.V.....H..K.... 26 0 0 26 0 0 0 0 26 25 96% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,T76I,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444R,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.............V.....H..K.... 26 0 0 26 0 0 0 0 26 23 88% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
G.I-S..--.D......G....D.............V.....H....... 26 0 0 26 0 0 0 0 26 20 76% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S..--.D......G....D..PFA........V.....H..K.... 26 0 0 26 0 0 0 0 26 23 88% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S373P,S375F,T376A,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..ISS.....D......GN...DTFPFANSNK.....R....H..K.... 26 0 0 0 26 0 0 0 26 18 69% [T19I,L24S,P25X,P26X,A27S,G142D,V213G,Y248N,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.K...D......G....D.FPFANSNK.....R....H..K.... 25 0 20 3 2 0 0 0 25 22 88% [T19I,L24-,P25-,P26-,A27S,I68K,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D......E....D.FPFANSNK.....R....H..K.... 25 1 5 14 4 0 0 1 25 17 68% [T19I,L24-,P25-,P26-,A27S,G142D,V213E,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFANSNK..Q..RK...H.LK.... 25 0 1 21 3 0 0 0 25 12 48% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S............G....D.FPFANSNK..Q..R....H.LK.... 25 0 6 18 0 0 1 0 25 22 88% [T19I,L24-,P25-,P26-,A27S,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
.FI-S.T...D......G....D.FPFANSNK.....R....H..K.... 24 0 2 3 1 0 1 17 24 23 95% [L5F,T19I,L24-,P25-,P26-,A27S,I68T,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D.N....G....D.FPFANSNK..R.V.....H..KS... 24 4 14 0 6 0 0 0 24 22 91% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,K147N,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S] Omicron_BA.4andBA.5
..I-S.....D.N....G....D.FPFANSNK..Q..R....H.LK.... 24 0 1 23 0 0 0 0 24 15 62% [T19I,L24-,P25-,P26-,A27S,G142D,K147N,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......G....D.FPFANSNK..Q..R....H.LKV... 24 0 2 21 1 0 0 0 24 21 87% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K,A1020V] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S..--.D......G....D.FPFANSNK..R.V.....H..K..S. 24 5 7 8 4 0 0 0 24 21 87% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1263S] Omicron_BA.4andBA.5
..I-S..--.D......G....D..PFANSNK..R.V..S..H..K.... 24 0 1 3 0 0 20 0 24 21 87% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D-.....G....D.FPFANSNK..R.V.....H..K.L.. 24 10 9 3 2 0 0 0 24 21 87% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1162L] Omicron_BA.4andBA.5
.FI-S.....D......GN...DTFPFANSNK.....R....H..K.... 24 0 2 10 10 0 0 2 24 20 83% [L5F,T19I,L24-,P25-,P26-,A27S,G142D,V213G,Y248N,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D......G....D.FPFANSNK..R.A.....H..K.... 24 10 3 8 1 0 1 1 24 20 83% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486A,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSN...R.V.....H..K.L.. 24 0 17 4 1 0 2 0 24 20 83% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1162L]
..I-S.R...D......G....D.FPFANSNK.....R....H..K.... 23 1 20 0 0 0 0 2 23 22 95% [T19I,L24-,P25-,P26-,A27S,I68R,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D......G....D.FPFANS.K.....R....H..K.... 23 0 3 1 12 0 7 0 23 10 43% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G...I..............V.....H..K.... 23 0 0 23 0 0 0 0 23 20 86% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,V289I,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D.E....G....D.FPFANSNK..R.V.....H..K.... 23 2 2 18 1 0 0 0 23 21 91% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,K147E,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.R...D......G....DTFPFANSNK.....R....H..K.... 22 5 14 0 3 0 0 0 22 22 100% [T19I,L24-,P25-,P26-,A27S,I68R,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.T...D......GH...D.FPFANSNK.....R....H..K.... 22 2 15 3 2 0 0 0 22 13 59% [T19I,L24-,P25-,P26-,A27S,I68T,G142D,V213G,Y248H,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,T791I,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D....K.G....D.FPFANSNK.....R....H..K.... 22 0 14 1 5 2 0 0 22 16 72% [T19I,L24-,P25-,P26-,A27S,G142D,N164K,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D......G....DIFPFANSN...R.V.....H..K.... 22 0 22 0 0 0 0 0 22 12 54% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,L249F,G339D,R346I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I.......D......G....DTFPFANSNK..M..R....H..K.... 22 0 0 0 22 0 0 0 22 13 59% [T19I,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452M,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.T...D......G....D.FPFANSTK.....R....H..K.... 22 1 15 0 4 0 0 2 22 17 77% [T19I,L24-,P25-,P26-,A27S,I68T,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+K417T
..I-S..--ID......G....D.FPFANSNK..R.V.....H..K.S.. 22 0 0 22 0 0 0 0 22 21 95% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1162S] Omicron_BA.4andBA.5
..I-S..--.D......G.F..D.FPFANSNK..R.V..S..H..K.... 22 1 0 21 0 0 0 0 22 20 90% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,S255F,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--ID......G.F..D.FPFANSNK..R.V.....H..K.... 22 0 0 21 1 0 0 0 22 8 36% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,T76I,G142D,V213G,S255F,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.......--.D-..........D.LPF...NK.S...RK...H..K.... 21 1 9 7 2 0 1 1 21 5 23% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,S371L,S373P,S375F,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] Omicron_BA.1
..I-S..--.D......G....D.FPFANSNKR.R.V.....H..KS... 21 0 0 0 21 0 0 0 21 20 95% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444R,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S] Omicron_BA.4andBA.5
..I-S.T...D......G....D.FPFANSNK..Q..R....H.LK.... 21 1 5 15 0 0 0 0 21 15 71% [T19I,L24-,P25-,P26-,A27S,I68T,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......G....D..............R....H.LK.... 21 0 0 21 0 0 0 0 21 10 47% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK..M..R....H..K.... 21 2 5 0 7 6 1 0 21 18 85% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452M,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452M
..I-S.V--.D......G....D.FPFANSNK..R.V.....H..K.... 21 1 2 15 3 0 0 0 21 19 90% [T19I,L24-,P25-,P26-,A27S,I68V,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--ID......G....D.............V.....H....... 21 0 0 21 0 0 0 0 21 15 71% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,T76I,G142D,V213G,G339D,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
G.I-S..--.D......G....DTFPFANSN...R.V.....H..K.... 21 0 0 11 1 9 0 0 21 17 80% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G...ID..PFANSNK..R.V.....H..K.... 21 10 9 2 0 0 0 0 21 17 80% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,V289I,G339D,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFANSNK.....R....HV.K.... 20 0 5 8 7 0 0 0 20 13 65% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,A701V,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D....K.G....D.FPFANSNKN.Q..R....H.LK.... 20 0 0 20 0 0 0 0 20 17 85% [T19I,L24-,P25-,P26-,A27S,G142D,N164K,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444N,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......G....D.FPFANSNK..Q..R......LK.... 20 0 20 0 0 0 0 0 20 12 60% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,S704L,N764K,D796Y,Q954H,N969K]
.FI-S.....D..T...G....D.FPFANSNK.....R....H..K.... 20 0 0 20 0 0 0 0 20 19 95% [L5F,T19I,L24-,P25-,P26-,A27S,G142D,M153T,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D.....EG....D.FPFANSNK.....R....H..K.... 20 0 2 18 0 0 0 0 20 14 70% [T19I,L24-,P25-,P26-,A27S,G142D,G181E,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,A522P,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
...-S.....D......GS...D.FPFANSTKN....R....H..K.... 20 0 0 0 20 0 0 0 20 19 95% [L24-,P25-,P26-,A27S,G142D,V213G,S247N,Y248S,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,N440K,K444N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--ID......G....D.FPFANSNK..R.V.....HV.K.... 20 0 0 20 0 0 0 0 20 19 95% [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,D614G,H655Y,N679K,P681H,A701V,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
G.I-S..--.D......E....D.FPFANSNK..R.V.....H..K.... 20 0 1 19 0 0 0 0 20 14 70% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213E,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G...LD.FPFANSNK..R.V.....H..K.... 20 3 6 8 3 0 0 0 20 20 100% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,V289L,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S...F.D......G....D.FPFANSNK..Q..R....H.LK.... 20 0 0 20 0 0 0 0 20 19 95% [T19I,L24-,P25-,P26-,A27S,V70F,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S..--........G...ID.FPFANSN...R.V.....H..K.... 20 0 17 1 0 0 2 0 20 16 80% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,V213G,V289I,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
G.I-S..--.D......G....D.FPFANSNK..R.V.....H..K.L.. 20 0 0 13 3 0 0 4 20 14 70% [V3G,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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1162L] Omicron_BA.4andBA.5
..I-S..--.D......G....DTFPFANSN...R.V.....H..K.... 20 0 19 1 0 0 0 0 20 18 90% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
G.I-S..--.D......G..................V.....H....... 20 0 0 20 0 0 0 0 20 15 75% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I--.V--.D......G....D.FPFANSNK..R.V.....H..K.... 20 0 0 20 0 0 0 0 20 18 90% [T19I,L24-,P25-,A27-,I68V,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSN......R....H..K.... 19 0 12 4 1 0 2 0 19 17 89% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-SR....D..T...G....D.FPFANSNK.....R....H..K.... 19 0 19 0 0 0 0 0 19 14 73% [T19I,L24-,P25-,P26-,A27S,W64R,G142D,M153T,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
G.I-S..--.D......G....D.FPFANSNK..R.V........K.... 19 0 16 0 2 0 0 1 19 12 63% [V3G,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,D614G,H655Y,N679K,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK..R.V..S.....K.... 19 0 19 0 0 0 0 0 19 10 52% [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,D614G,H655Y,N658S,N679K,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G...ID.FPFANSNK..R.V........K.... 19 0 19 0 0 0 0 0 19 11 57% [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,D614G,H655Y,N679K,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK..R.V.....Y..K.... 19 2 3 10 3 0 1 0 19 17 89% [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,D614G,H655Y,N679K,P681Y,N764K,D796Y,Q954H,N969K]
..I....--.D......G....D.FPFANSNK..R.V.....H..K.... 19 0 6 5 1 0 0 7 19 6 31% [T19I,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.V...D......G....D.FPFANSNK.....R....H..K.... 19 0 11 3 4 0 0 1 19 13 68% [T19I,L24-,P25-,P26-,A27S,I68V,G142D,N211G,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S...A.D......G....D.FPFANSNK.....R....H..K.... 19 0 9 4 2 1 0 3 19 11 57% [T19I,L24-,P25-,P26-,A27S,V70A,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
G.I-S..--.D......G....D.FPFANSNKR.R.V.....H..K.... 19 1 0 15 1 0 0 2 19 16 84% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444R,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFAN..K....V.....H..K.... 19 0 0 19 0 0 0 0 19 14 73% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,N440K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D.....AG....D.FPFANSNK..Q..R....H.LK.... 19 0 0 4 15 0 0 0 19 13 68% [T19I,L24-,P25-,P26-,A27S,G142D,G181A,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......G....D.FPF.NSNK.....R....H..K.... 18 0 2 0 1 0 0 15 18 15 83% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D..T...G....D.FPFANSNK.....R....H..K.... 18 2 2 2 10 0 1 1 18 14 77% [T19I,L24-,P25-,P26-,A27S,G142D,M153T,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D......G....D.FPFAN.NK..R.V........K.... 18 0 18 0 0 0 0 0 18 12 66% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,N764K,D796Y,Q954H,N969K]
..I-S..--ID......G....D.FPFAN..K..R.V.....H..K.... 18 0 0 18 0 0 0 0 18 16 88% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,T76I,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.T...D......GS...D.FPFANSNK.....R....H..K.... 18 2 7 9 0 0 0 0 18 18 100% [T19I,L24-,P25-,P26-,A27S,I68T,G142D,V213G,Y248S,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D......G....D.FPFANSNK..R.......H..KS... 18 0 0 0 18 0 0 0 18 9 50% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S]
..I.......D......GN...DTFPFANSNK.....R....H..K.... 18 0 0 0 18 0 0 0 18 13 72% [T19I,G142D,V213G,Y248N,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+P25_,P26_
..I-S..--.D......GH...D.FPFANSNK.....R....H..K.... 18 1 4 13 0 0 0 0 18 15 83% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,Y248H,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D.....VG....D.FPFANSNK.....R....H..K.... 18 1 7 8 1 0 0 1 18 8 44% [T19I,L24-,P25-,P26-,A27S,G142D,G181V,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--ID......G....D.FPFAN.....R.V.....H..K.... 18 0 0 18 0 0 0 0 18 16 88% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,T76I,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFAN.N...Q..R....H.LK.... 18 0 0 18 0 0 0 0 18 17 94% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S.....D......G.F..D.FPFANSNK..M..R....H..K.... 17 0 17 0 0 0 0 0 17 11 64% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,S255F,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452M,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,D936Y,Q954H,N969K] Omicron_BA.2+L452M
..I-S.....D......G....D.FPFANSNK.....R....H..K...M 17 0 2 3 2 0 10 0 17 16 94% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,V1264M] Omicron_BA.2
G.I-S..--.D......G....D.FPFANSN.....V.....H..K.... 17 0 1 15 1 0 0 0 17 16 94% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S............G....D.FPFANSNK.....R....H..K.... 17 0 9 3 1 0 4 0 17 14 82% [T19I,L24-,P25-,P26-,A27S,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....DTFPFANSN......R....H..K.... 17 0 10 0 4 0 3 0 17 13 76% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
.FI-S..--.D......G....D.FPFANSNK..R.V..S..H.LK.... 17 1 0 16 0 0 0 0 17 16 94% [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,D614G,H655Y,N658S,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..L-S.....D......G....D.FPFANSNK.....R....H..K.... 17 1 2 2 7 0 0 5 17 8 47% [T19L,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
G.I-S..--.D..I...G....D.FPFANSNK..R.V.....H..K.... 17 1 12 4 0 0 0 0 17 16 94% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,M153I,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
G.I-S..--.D......G....D..PFANSNK..R.V.....H..K.... 17 0 7 9 0 0 1 0 17 12 70% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--ID......G....D.FPFANSNKN.R.V.....H..K.... 17 0 2 15 0 0 0 0 17 14 82% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,T76I,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFA.........R....H.L..... 17 0 0 17 0 0 0 0 17 15 88% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,D796Y,Q954H,N969K]
G.I-S..--.D......G....D.FPFA........V.....H....... 17 0 0 17 0 0 0 0 17 14 82% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK..R.V...V.H..K.... 16 10 2 3 0 0 1 0 16 12 75% [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,D614G,H655Y,I670V,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....H.FPFANSNK..Q..R....H.LK.... 16 3 2 11 0 0 0 0 16 14 87% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339H,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..IS-..--ID......G....D.FPFANSNK..R.V.....H..K.... 16 0 0 16 0 0 0 0 16 14 87% [T19I,L24S,P25-,P26H,A27-,Y28-,H69-,V70-,T76I,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
G.I-S..--.D......G....D.FPFANSNK..R.V.....H.LK.... 16 0 0 16 0 0 0 0 16 15 93% [V3G,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,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..RYV.....H..K.... 16 3 7 4 1 0 0 1 16 14 87% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,N460Y,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.-T-.D......G....D.FPFANSNK..R.V.....H..K.... 16 0 4 5 6 1 0 0 16 15 93% [T19I,L24-,P25-,P26-,A27S,I68-,H69T,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I.......D......G....D.FPFANSNK..R.V.....H..K.... 16 0 0 0 16 0 0 0 16 12 75% [T19I,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G..I.D.FPFANSNK..Q..R....H.LK.... 16 0 1 15 0 0 0 0 16 15 93% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,T259I,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
G.I-S..--.D......G....D.FPFANSNK..R.V.I...H..K.... 16 8 2 5 0 0 1 0 16 11 68% [V3G,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,T547I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D.E....G....DTFPFANSNK..R.V..S..H..K.... 16 0 0 16 0 0 0 0 16 16 100% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,K147E,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFANSNK.SM..R....H..K.... 16 0 1 0 0 0 15 0 16 15 93% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,L452M,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452M
..I-S..--.D......G....D.FPFANSN.....V........K.... 16 0 16 0 0 0 0 0 16 9 56% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N764K,D796Y,Q954H,N969K]
..I-S.L...D......G....D.FPFANSNK..Q..R....H.LK.... 16 0 0 16 0 0 0 0 16 15 93% [T19I,L24-,P25-,P26-,A27S,I68L,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......G....D..PFA.........R....H....... 16 0 0 16 0 0 0 0 16 13 81% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S373P,S375F,T376A,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S..--.D......G....DTFPFANSNK..R.V.....H..KS... 16 5 0 0 11 0 0 0 16 15 93% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S] Omicron_BA.4andBA.5
...-S..--.D......G....D.FPFANSNK..R.V........K.... 16 0 0 0 16 0 0 0 16 14 87% [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,D614G,H655Y,N764K,D796Y,Q954H,N969K]
.FI-S..--.D......G....D..PFANSNK..R.V.....H..K.... 16 0 3 0 0 0 13 0 16 11 68% [L5F,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,N185Y,V213G,G339D,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S............G........................H....... 16 0 0 16 0 0 0 0 16 9 56% [T19I,L24-,P25-,P26-,A27S,V213G,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S..--.D...........D.FP.AN.NK..R.V.....H..K.... 16 0 0 0 6 10 0 0 16 14 87% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G339D,S371F,S373P,T376A,D405N,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G.F..D.FPFANSNK..R.V.....H..KS... 16 0 2 2 12 0 0 0 16 16 100% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,S255F,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S] Omicron_BA.4andBA.5
..I-S..Y..D......G....D.FPFANSNK..M..R....H..K.... 16 0 0 0 16 0 0 0 16 11 68% [T19I,L24-,P25-,P26-,A27S,H69Y,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452M,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,W886L,Q954H,N969K] Omicron_BA.2+L452M
..I.......D......G....D.FPFANSNK.....R....H..K.... 15 0 2 3 9 0 0 1 15 7 46% [T19I,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+P25_,P26_
..I-S.....D......G....DKFPFANSNK..Q..R....H.LK.... 15 1 0 14 0 0 0 0 15 9 60% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,R346K,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......GN...D.FPFANSN......R....H..K.... 15 0 13 1 0 0 1 0 15 11 73% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,+247SGE,Y248N,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D......G....D.FPFANSNK.....R....H..K..S. 15 1 1 12 1 0 0 0 15 14 93% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1263S] Omicron_BA.2
...-S..--.D-.....G....D.FPFANSNK..R.V.....H..K.... 15 0 7 0 8 0 0 0 15 7 46% [L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D..I...G....D.FPFANSNK..Q..R....H.LK.... 15 0 2 13 0 0 0 0 15 15 100% [T19I,L24-,P25-,P26-,A27S,G142D,M153I,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......GS...D.FPFANSN......R....H..K.... 15 0 8 1 3 0 3 0 15 7 46% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,Y248S,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
G..-S..--.D......G....D.FPFANSNK..R.V.....H..K.... 15 0 9 5 1 0 0 0 15 11 73% [V3G,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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK..R..........K.... 15 0 15 0 0 0 0 0 15 5 33% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,Q498R,N501Y,Y505H,D614G,H655Y,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D..PFANSNK..Q.......H.LK.... 15 0 0 15 0 0 0 0 15 5 33% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S..--.D.....VG....D.FPFANSN...R.V.....H..K.... 15 0 5 2 0 0 8 0 15 14 93% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G181V,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
G.I-S..--........G....D.FPFANSNK..R.V.....H..K.... 15 0 2 2 0 10 1 0 15 13 86% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSN...R.V........K.... 15 0 15 0 0 0 0 0 15 11 73% [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,D614G,H655Y,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G.F..D.FPFANSNK..R.V.....HS.K.... 15 0 0 15 0 0 0 0 15 15 100% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,S255F,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,A701S,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..Y..D......G....D.FPFANSNK..Q..R....H.LK.... 14 0 0 13 1 0 0 0 14 12 85% [T19I,L24-,P25-,P26-,A27S,H69Y,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.T...D...L..G....D.FPFANSNK.....R....H..K.... 14 0 13 0 1 0 0 0 14 13 92% [T19I,L24-,P25-,P26-,A27S,I68T,G142D,F157L,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D......G....D.FPFAN.NK..R.V.....H..K.L.. 14 0 5 4 4 0 1 0 14 12 85% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1162L]
..I.......D......GS...D.FPFANSTKN....R....H..K.... 14 0 0 0 14 0 0 0 14 14 100% [T19I,G142D,V213G,S247N,Y248S,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,N440K,K444N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+K417T
.FI-S.....D......G....D.FPFANSN......R....H..K.... 14 0 8 2 0 0 4 0 14 9 64% [L5F,T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
.FI-SR....D......G....D.FPFANSNK.....R....H..K.... 14 0 4 3 7 0 0 0 14 13 92% [L5F,T19I,L24-,P25-,P26-,A27S,W64R,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--ID......G....D.FPFANSNK..R.V.....H.LK.... 14 2 1 11 0 0 0 0 14 13 92% [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,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..L-S.....D......G....D.FPFANSNK..Q..R....H.LK.... 14 0 1 13 0 0 0 0 14 14 100% [T19L,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.LPF...NK.....R....H..K.... 14 0 0 0 0 0 14 0 14 8 57% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371L,S373P,S375F,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.T...D......G....D.FPFAN.NK.....R....H..K.... 14 0 0 0 3 0 11 0 14 10 71% [T19I,L24-,P25-,P26-,A27S,I68T,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.FI-S..--.D......G....D.FPFANSNK..R.V.....H..K.S.. 14 0 1 1 0 0 12 0 14 10 71% [L5F,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,N185Y,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1162S] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFANSTK.....R....H..K...L 14 0 2 12 0 0 0 0 14 10 71% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,V1264L] Omicron_BA.2+K417T
..I-S..--.D......G....D.FPFAN.......V..S..H..K.... 14 0 0 14 0 0 0 0 14 13 92% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K]
G.I-S.....D......G....D.FPFANSNK..R.V.....H..K.... 14 0 6 4 3 0 1 0 14 13 92% [V3G,T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
...-S..--.D......G....D.FPFANSNK..R.V.....H..KS... 14 0 6 0 8 0 0 0 14 12 85% [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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S]
..I-S.....D......G....D..PFA.........R....H.LK.... 14 0 0 14 0 0 0 0 14 10 71% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S373P,S375F,T376A,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFAN.NK..Q.......H.LK.... 14 0 1 13 0 0 0 0 14 13 92% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452Q,S477N,T478K,E484A,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....DTFPFAN.NK..R.V.....H..K.... 14 0 6 0 3 0 5 0 14 12 85% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFANSNK.....R...EH.LK.... 14 0 0 0 14 0 0 0 14 14 100% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,Q677E,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D.N....G....D.FPFANSNK.....R....H..K.... 13 3 4 1 1 0 2 2 13 10 76% [T19I,L24-,P25-,P26-,A27S,G142D,K147N,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S..--.D......G....D.FPFANSNK..R.V.....HV.KS... 13 1 10 0 2 0 0 0 13 13 100% [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,D614G,H655Y,N679K,P681H,A701V,N764K,D796Y,Q954H,N969K,A1020S] Omicron_BA.4andBA.5
.FI-S..--........G....D.FPFANSN...R.V.....H..K.... 13 0 11 2 0 0 0 0 13 10 76% [L5F,T19I,L24-,P25-,P26-,A27S,H69-,V70-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D....K.G....D.FPFANSNK..Q..R....H.LK.L.. 13 0 0 13 0 0 0 0 13 13 100% [T19I,L24-,P25-,P26-,A27S,G142D,N164K,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K,P1162L] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S..--.D......G.P..D.FPFANSNK..R.V.....H..K.... 13 2 4 6 1 0 0 0 13 12 92% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,S255P,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--ID...L..G....D.FPFANSNK..R.V.....H..K.... 13 0 0 13 0 0 0 0 13 12 92% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,T76I,G142D,F157L,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSTK.....R....H..K...L 13 0 1 2 8 0 0 2 13 11 84% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,S71F,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,N440K,S477N,T478R,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,V1264L]
..I-S..--.D-.....G....DTFPFANSNK..R.V..S..H..K.... 13 7 0 6 0 0 0 0 13 13 100% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......GN...DTFPFANSNKR....R....H..K.... 13 0 3 0 10 0 0 0 13 10 76% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,Y248N,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444R,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.F--.D......G....D.FPFANSNK..R.V.....H..K.... 13 3 1 9 0 0 0 0 13 12 92% [T19I,L24-,P25-,P26-,A27S,I68F,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D-.....G....D.FPFANSNK..R.V..S..H..K.... 13 2 4 6 0 0 1 0 13 10 76% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S............G....D.FPFANST......R....H..K.... 13 0 8 3 2 0 0 0 13 13 100% [T19I,L24-,P25-,P26-,A27S,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANS......V.....H..K.... 13 0 0 13 0 0 0 0 13 12 92% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-SR.--.D......G....D.FPFANSNK..R.V.....H..K.... 13 2 8 3 0 0 0 0 13 13 100% [T19I,L24-,P25-,P26-,A27S,W64R,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--........G....D.FPFANSN...R.V.....H..KS... 13 0 5 4 4 0 0 0 13 12 92% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S]
..I-S..--.D......G..................V..S..H....... 13 0 0 13 0 0 0 0 13 12 92% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N658S,N679K,P681H,D796Y,Q954H,N969K]
..I-S.....D......G......FPFANSNK.....R....H..K.... 12 0 7 0 1 0 3 1 12 5 41% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.T...D......G.F..D.FPFANSNK.....R....H..K.... 12 1 11 0 0 0 0 0 12 11 91% [T19I,L24-,P25-,P26-,A27S,I68T,G142D,V213G,S255F,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D......G....D.FPFANSNK..M..R.......K.... 12 0 12 0 0 0 0 0 12 4 33% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452M,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFAN..K.....R....H..K.... 12 0 2 8 0 0 2 0 12 9 75% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
G.I-S..--.D...L..G....D.FPFANSNK..R.V.....H..K.... 12 3 2 4 2 1 0 0 12 9 75% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,F157L,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK..Q..R....H..K.... 12 0 2 10 0 0 0 0 12 9 75% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNK..R.V.....HT.K.... 12 3 5 4 0 0 0 0 12 11 91% [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,D614G,H655Y,N679K,P681H,A701T,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......GH...D.FPFANSTK.....R....H..K.... 12 1 0 11 0 0 0 0 12 7 58% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,Y248H,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2+K417T
G.I-S..--.D......G....D.FPFANSNK..R.V.....H..K.S.. 12 0 3 8 0 0 0 1 12 12 100% [V3G,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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1162S] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFANSNK..R.V.....H.LK.... 12 0 0 10 1 0 1 0 12 8 66% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D....K.G....D.FPFA.........R....H.LK.... 12 0 0 12 0 0 0 0 12 10 83% [T19I,L24-,P25-,P26-,A27S,G142D,N164K,V213G,G339D,S371F,S373P,S375F,T376A,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G..................V.....H..K.... 12 0 0 12 0 0 0 0 12 7 58% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
G.I-S..--.D......G....DKFPFANSNK..R.V.....H..K.... 12 5 7 0 0 0 0 0 12 12 100% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,R346K,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--........G....D.FPFANSNK..R.V..S..H..K.... 12 0 5 3 0 0 4 0 12 9 75% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D-.....G...ID.FPFANSNK..R.V.....H..K.... 12 1 9 2 0 0 0 0 12 11 91% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,V289I,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANSNK.....R....H..KS... 12 0 0 12 0 0 0 0 12 10 83% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S] Omicron_BA.2
..I-S..--.D......G....D.FPFA.SN...R.V.....H..K.... 12 0 1 11 0 0 0 0 12 8 66% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D-.....G....D.FPFANSTK.SQ..R....H..K...L 12 0 0 4 8 0 0 0 12 10 83% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,S71F,G142D,Y144-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417T,N440K,G446S,L452Q,S477N,T478R,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,V1264L]
..I-SL.--.D......G....D.FPFANSNK..R.V.....H..K.... 11 0 7 3 0 0 1 0 11 9 81% [T19I,L24-,P25-,P26-,A27S,W64L,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D...S..G....D.FPFAN.NK.....R....H..K.... 11 0 10 0 1 0 0 0 11 11 100% [T19I,L24-,P25-,P26-,A27S,G142D,F157S,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
G.I-S..--.D......G....D.FPFAN..K..R.V.....H..K.... 11 0 0 11 0 0 0 0 11 10 90% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFAN.NK.....R....H..K.... 11 0 1 3 5 0 2 0 11 10 90% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D....K.G....DIFPFANSNK..Q..R....H.LK.... 11 0 1 10 0 0 0 0 11 9 81% [T19I,L24-,P25-,P26-,A27S,G142D,N164K,V213G,G339D,R346I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......G....D.FPFANSNK..R.......H..K.... 11 0 3 6 2 0 0 0 11 8 72% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--ID......G....D.FPFANSNK..R.V...V.H..K.... 11 7 0 4 0 0 0 0 11 10 90% [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,D614G,H655Y,I670V,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFAN.NK..R.V.....H..K..Q. 11 0 7 1 1 0 2 0 11 8 72% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1263Q]
..I-S.....D......G....D.FPFANSNK.....R....H..KV... 11 0 2 5 2 0 0 2 11 4 36% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020V] Omicron_BA.2
..I-S.....D......G....D.FPFANSNKR....R....H..K.... 11 0 4 3 2 0 0 2 11 6 54% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444R,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D......G....D.FPFANSNK..Q..R...HH.LK.... 11 0 0 11 0 0 0 0 11 10 90% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,Q677H,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......G....D.FPFAN.NK..Q..R....H.LK...L 11 0 0 0 0 0 11 0 11 10 90% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K,V1264L]
..I-S..--.D......G....D.FPFANSNK..R.V.....R..K.... 11 0 2 9 0 0 0 0 11 11 100% [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,D614G,H655Y,N679K,P681R,N764K,D796Y,Q954H,N969K]
G.I-S..--.D......G....D.FPFANSNK.SR.V.....H..K.... 11 0 4 7 0 0 0 0 11 7 63% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--........G....D.FPFANS.K..R.V.....H..K.... 11 0 6 3 1 1 0 0 11 10 90% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.-I-S..--.D......G....D.FPFANSNK..R.V.....H..K.... 11 0 6 5 0 0 0 0 11 4 36% [L5-,+5X,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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G...................R....H.LK.... 11 0 0 11 0 0 0 0 11 7 63% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
G.I-S..--.D......G....D.FPFANSN...R.V...V.H..K.... 11 0 7 2 2 0 0 0 11 10 90% [V3G,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,D614G,H655Y,I670V,N679K,P681H,N764K,D796Y,Q954H,N969K]
G.I-S..--.D......G....D.FPFANSNK..R.V.....H....... 11 0 5 1 5 0 0 0 11 7 63% [V3G,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,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S..--........G........................H....... 11 0 0 11 0 0 0 0 11 7 63% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,V213G,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S..--.D......G..A.D.FPFANSN...R.V.....H..K.... 11 0 7 4 0 0 0 0 11 9 81% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,T259A,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....DTFPFAN.NK.....R....H..K.... 11 0 1 0 0 0 10 0 11 7 63% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.FI-S..--.D.....EG....D.FPFANSNK..R.V.....H..K.... 10 0 7 3 0 0 0 0 10 6 60% [L5F,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G181E,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,Q1113K] Omicron_BA.4andBA.5
..I-S.....D.E....G....DTFPFANSNK.....R....H..K.... 10 0 8 0 2 0 0 0 10 5 50% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D......G...................R....H..K.... 10 0 0 10 0 0 0 0 10 4 40% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFANSNK..M..R....H..K..L. 10 3 4 1 0 0 2 0 10 6 60% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452M,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,T678I,N679K,P681H,N764K,D796Y,Q954H,N969K,P1263L] Omicron_BA.2+L452M
..I-S.....D......G....D..PFANSNK..M..R....H..K.... 10 1 3 1 0 0 5 0 10 6 60% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452M,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-SC.--.D......G...ID.FPFANSNK..R.V.....H..K.... 10 1 9 0 0 0 0 0 10 9 90% [T19I,L24-,P25-,P26-,A27S,W64C,H69-,V70-,G142D,V213G,V289I,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--ID......G....D.FPFANSNK..R.V.K...H..K.... 10 0 0 10 0 0 0 0 10 9 90% [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,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G....D.FPFANSNK.....R....Y..K.... 10 0 2 0 6 0 0 2 10 5 50% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681Y,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFAN.NK..R.......H..K.... 10 0 8 0 1 0 1 0 10 3 30% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
G.I-S..--.D......G....D.FPFANSNK..R.V.....HV.K.... 10 2 0 5 0 0 3 0 10 9 90% [V3G,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,D614G,H655Y,N679K,P681H,A701V,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
GFI-S..--.D......G....D.FPFANSNK..R.V.....H..K.... 10 0 4 3 2 0 1 0 10 9 90% [V3G,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,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..-L.D......G....D.FPFANSNK..R.V..S..H..K.... 10 0 10 0 0 0 0 0 10 10 100% [T19I,L24-,P25-,P26-,A27S,H69-,V70L,S71X,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N658S,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......GS...D.FPFANSNK..Q..R....H.LK.... 10 0 0 10 0 0 0 0 10 10 100% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,Y248S,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......GNF..DTFPFANSNK.....R....H..K.... 10 0 0 0 10 0 0 0 10 8 80% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,Y248N,S255F,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..I-S.....D..T...G....D.FPFANSNK..Q..R....H.LK.... 10 0 0 10 0 0 0 0 10 10 100% [T19I,L24-,P25-,P26-,A27S,G142D,M153T,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
..I-S.....D......G....D.FPFAN........R....H.L..... 10 0 0 10 0 0 0 0 10 9 90% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFAN.NK.....R....H.LK.... 10 0 1 3 1 0 5 0 10 8 80% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G....D.FPFANSNKN.R.V.....H..KS... 10 0 1 7 2 0 0 0 10 10 100% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFAN.NK..R.V.....H....... 10 0 2 4 3 0 1 0 10 10 100% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
..I-S.....D......G....D.FPFANSN...R..R....H..K.... 10 0 8 0 0 0 2 0 10 9 90% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
G.I-S..--.D.....VG....D.FPFANSNK..R.V.....H..K.... 10 0 1 6 2 1 0 0 10 8 80% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,G181V,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..........K.G....D.FPFANSN...Q..R....H.LK.... 10 0 4 5 0 0 1 0 10 9 90% [T19I,L24-,P25-,P26-,A27S,N164K,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
..I-S.....D......G....N.FPFANSNK..Q..R....H.LK.... 10 0 0 10 0 0 0 0 10 9 90% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339N,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
G.I-S..--.D......G....D.FPFANSNKN.R.V.....H..K.... 10 0 0 10 0 0 0 0 10 10 100% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G.F..D.FPFANSN...R.V.....H..K.... 10 0 1 1 0 0 8 0 10 8 80% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,S255F,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
G.I-S..--.D......G.F..D.FPFANSNK..R.V.....H..K.... 10 0 1 5 4 0 0 0 10 7 70% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,S255F,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S..--.D......G....D.FPFANS.K..R.V.....H..KS... 10 0 1 1 8 0 0 0 10 4 40% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,A1020S]
G.I-S..--.D......G....D.FPFANSNKT.R.V.....H..K.... 10 1 4 0 0 5 0 0 10 10 100% [V3G,T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,I1221T] Omicron_BA.4andBA.5
..I-S..--ID......G....D.FPFAN.N...R.V.....H..K.... 10 0 0 10 0 0 0 0 10 10 100% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,T76I,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..I-S..--.D......G.F..D.FPFAN.NK..R.V.....H..K.... 10 0 8 0 1 0 1 0 10 10 100% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,S255F,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.FI-S..-L.D......G....D.FPFANSNK..R.V.....H..K.... 10 0 10 0 0 0 0 0 10 10 100% [L5F,T19I,L24-,P25-,P26-,A27S,H69-,V70L,S71X,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
..I-S.....D......G........................H....... 10 0 0 10 0 0 0 0 10 4 40% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
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last modified: Mon Aug 1 18:21 2022
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