COVID-19 Viral Genome Analysis Pipeline
Enabled by data from
XSpike
eXplore the Spike protein sequence in the SARS CoV-2 virus
Last update: May 19, 2022
Delta and Omicron Variants
Global
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Evaluating 490336 sequences of length 3136
Sampled from 2022-03-20 to 2022-05-16.
Specified Date Range: ['2022-03-20', '2022-05-19']
Highest entropy sites for: Global
Site Entropy
27 0.2959
24 0.2952
26 0.2944
25 0.2870
408 0.2501
452 0.2499
371 0.2493
212 0.2472
70 0.2448
69 0.2417
19 0.2317
213 0.2287
376 0.2279
405 0.2256
547 0.2238
496 0.2235
211 0.2231
95 0.2224
446 0.2223
981 0.2214
67 0.2211
144 0.2210
856 0.2206
145 0.2194
143 0.2188
214 0.0065
704 0.2071
346 0.2058
440 0.1120
417 0.0726
5 0.0709
68 0.0476
493 0.0324
1162 0.0313
681 0.0297
248 0.0273
486 0.0269
64 0.0245
255 0.0229
157 0.0220
879 0.0184
1221 0.0181
798 0.0168
1259 0.0165
701 0.0164
Most highly correlated site-pairs for: Global
cramerV mutInfo
27 24 0.7566 0.2909
27 26 0.5835 0.2902
24 26 0.8778 0.2895
27 25 0.4991 0.2841
26 25 0.4990 0.2828
24 25 0.5762 0.2826
70 69 0.5773 0.2373
371 376 0.5701 0.2200
212 211 0.4084 0.2192
371 405 0.6968 0.2172
981 856 0.7059 0.2171
145 143 0.7067 0.2164
95 856 0.7041 0.2160
95 67 0.4981 0.2160
371 856 0.7022 0.2158
408 405 0.9342 0.2009
408 376 0.9269 0.1968
70 144 0.9244 0.1866
408 371 0.9239 0.1980
408 95 0.9206 0.1934
408 213 0.9202 0.1928
408 856 0.9201 0.1929
408 981 0.9198 0.1926
408 67 0.9193 0.1922
408 143 0.9187 0.1906
408 145 0.9181 0.1904
408 547 0.9167 0.1909
408 19 0.9138 0.1900
408 144 0.9115 0.1867
408 496 0.9115 0.1881
Most common patterns for local area, where Local = Global
111
111122222233344444444456777889122
12222666679444511114547700144589948009578625
594567478905345712348561658706263671148691219
LTLPPAWAIHVTVYYFNLVRYSRSTDRKNGLFQGTPASGNALPID Global UK Eu-UK NAmer Asia Africa SAmer Ocean Local Exact Pct [Context]
490336 149596 174627 128966 20298 1795 2173 12882 444416 <----------- Totals
.I---S............G....FANSNK...R..H......... 332986 120218 107982 79194 13769 537 518 10769 332986 275986 82% [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............G....FANSNK.Q.R..H.L....... 21321 191 206 20756 134 0 5 29 21321 18972 88% [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
.......V.--I---.-I....KL...NKS..RSKH...K.F... 20172 3272 3287 12021 966 3 366 257 20172 15108 74% [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................G....FANSNK...R..H......... 10177 0 10142 1 31 0 0 3 10177 8331 81% [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............G....FANSN....R..H......... 8910 0 6611 967 1008 2 322 0 8910 6523 73% [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---S............G....FANSNK...R..H......... 4683 1405 1577 1422 129 5 10 135 4683 3909 83% [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..T.........G....FANSNK...R..H......... 3015 1033 1501 252 84 4 0 141 3015 2498 82% [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
.......V.--I---.-I.....L...NKS..RSKH...K.F... 2817 463 585 1169 57 2 98 443 2817 1745 61% [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............G....FANSTK...R..H......... 2518 1648 246 449 156 1 0 18 2518 2229 88% [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............G....FAN.NK...R..H......... 2384 11 1390 500 406 7 69 1 2384 1902 79% [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............G....FANSNK...R..H.L....... 2374 489 398 1268 15 0 22 182 2374 1949 82% [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,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2
.I---S...--.......G....FANSNK.RV...H......... 1681 204 443 195 26 789 1 23 1681 718 42% [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............G....FANSNK...R............ 1514 0 1493 11 0 0 0 10 1514 1025 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,N679K,N764K,D796Y,Q954H,N969K]
.I---S............G....FANSNK.M.R..H......... 1474 302 890 223 33 0 18 8 1474 1011 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...........SG....FANSNK...R..H......... 1431 572 620 175 34 30 0 0 1431 1176 82% [T19I,L24-,P25-,P26-,A27S,G142D,L212S,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...--.......G....FANSNK...R..H......... 1292 545 398 298 34 7 0 10 1292 1129 87% [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
.I---S............G..F.FANSNK...R..H......... 1281 250 322 662 30 1 1 15 1281 1146 89% [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
.I---S............G....FANSNK...R..H.......T. 1094 197 57 44 631 0 0 165 1094 943 86% [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,I1221T] Omicron_BA.2
.I---S............G....FANSNK...R..H......L.. 1006 697 99 186 13 0 0 11 1006 865 85% [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............G....FANSNK...R..H..D...... 932 192 104 200 329 1 0 106 932 770 82% [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,G798D,Q954H,N969K] Omicron_BA.2
.I---S............G....FANSNK...R..H........H 766 1 736 29 0 0 0 0 766 675 88% [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,D1259H] Omicron_BA.2
.I---S.........L..G....FANSNK...R..H......... 751 371 216 125 33 0 0 6 751 604 80% [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............G....FANSNK.Q.R..H.L..V.... 684 1 5 674 2 0 0 2 684 618 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,N679K,P681H,S704L,N764K,D796Y,A879V,Q954H,N969K] Omicron_BA.2+L452Q+S704L_BA.2.12.1
.I---S............G.S..FANSNK...R..H......... 659 146 98 409 6 0 0 0 659 427 64% [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............G.H..FANSNK...R..H......... 630 180 369 78 2 0 0 1 630 315 50% [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,S1261Y] Omicron_BA.2
.I---S............G....FANSNK...R..H......S.. 629 152 300 158 11 8 0 0 629 547 86% [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---SR...........G....FANSNK...R..H......... 573 102 347 51 65 1 0 7 573 490 85% [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............G.....ANSNK...R..H......... 571 108 434 13 6 1 9 0 571 450 78% [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]
.......V.--I---.-I....KL....KS..RSKH...K.F... 556 0 479 10 56 0 11 0 556 262 47% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,R346K,S371L,S373P,S375F,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
.......V.--I---.-I.....L...NKS..RSKHV..K.F... 554 299 144 89 7 0 11 4 554 161 29% [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,A701V,N764K,D796Y,N856K,Q954H,N969K,L981F] Omicron_BA.1
.I---S............G....FANSNK.R.R..H......... 549 37 448 47 11 0 0 6 549 494 89% [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---SL...........G....FANSNK...R..H......... 545 59 392 57 13 24 0 0 545 473 86% [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..........-IG....FANSNK...R..H......... 403 50 317 30 3 0 0 3 403 330 81% [T19I,L24-,P25-,P26-,A27S,G142D,N211-,L212I,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............G....FANSNKS..RS.H......... 390 0 375 15 0 0 0 0 390 383 98% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
..---S............G....FANSNK...R..H......... 377 0 118 6 248 0 0 5 377 272 72% [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]
.I---S............G...TFANSNK...R..H......... 362 124 196 20 19 0 0 3 362 284 78% [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............G....FANSNK...R..H....V.... 350 59 67 210 8 0 2 4 350 301 86% [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,A879V,Q954H,N969K] Omicron_BA.2
F......V.--I---.-I....KL...NKS..RSKH...K.F... 329 33 43 236 13 0 3 1 329 261 79% [L5F,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
.IF-I-............G....FANSNK...R..H......... 291 0 291 0 0 0 0 0 291 221 75% [T19I,L24F,P25-,P26I,A27-,Y28X,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]
.I---S............G....FANSN..Q.R..H.L....... 238 0 3 215 7 0 13 0 238 198 83% [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.......-....G....FANSNK...R..H......... 236 113 60 47 11 2 0 3 236 148 62% [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............G....FANSNK...R..HV........ 234 117 70 38 0 0 0 9 234 215 91% [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............E....FANSNK...R..H......... 225 75 32 111 3 0 0 4 225 198 88% [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.................FANSNK...R..H......... 201 0 29 6 162 2 0 2 201 79 39% [T19I,L24-,P25-,P26-,A27S,G142D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,F565S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S............G....YANSNK...R..H......... 199 19 135 8 35 0 0 2 199 136 68% [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.........S..G....FANSNK...R..H......... 199 67 105 12 13 0 0 2 199 160 80% [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............G.........K...R..H......... 169 0 166 2 0 1 0 0 169 109 64% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S............GH...FANSNK...R..H......... 168 83 73 6 4 0 0 2 168 137 81% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,R214H,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............G.N..FANSNK...R..H......... 166 22 80 58 3 0 1 2 166 112 67% [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....A.......G....FANSNK...R..H......... 159 128 23 4 2 2 0 0 159 142 89% [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
FI---S............G....FANSNK.Q.R..H.L....... 146 8 0 137 1 0 0 0 146 132 90% [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............G....FANSNK......H......... 140 8 33 68 29 1 0 1 140 52 37% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S............G....FANSNK...R.KH......... 137 33 58 36 7 0 0 3 137 97 70% [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............G....FANS.K...R..H......... 135 0 78 37 18 0 1 1 135 91 67% [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]
.......V.--I---.-I....KL...TKS..RSKH...K.F... 125 5 12 106 1 0 1 0 125 95 76% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,R346K,S371L,S373P,S375F,K417T,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
FI................G....FANSNK...R..H......... 122 0 120 0 2 0 0 0 122 106 86% [L5F,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_
.......V.--I---.-I....KL........RSKH...K.F... 122 0 1 121 0 0 0 0 122 56 45% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,R346K,S371L,S373P,S375F,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............G.............R..H......... 118 0 3 115 0 0 0 0 118 43 36% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
.I....L...........G....FANSNK...R..H......... 111 0 111 0 0 0 0 0 111 101 90% [T19I,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+P25_,P26_
FI---S............G....FANSN....R..H......... 111 0 85 13 12 0 1 0 111 75 67% [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
.L---S............G....FANSNK...R..H......... 107 38 39 24 1 0 0 5 107 92 85% [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]
.I---S............G....FANSNK.Q.R..H......... 107 3 26 75 3 0 0 0 107 68 63% [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]
.L---S............G....FANSNK...R..H..D...... 105 0 0 105 0 0 0 0 105 98 93% [T19L,L24-,P25-,P26-,A27S,G142D,V159I,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,G798D,Q954H,N969K]
.I---S............G....FAN.NK.Q.R..H.L....... 102 0 5 80 14 0 3 0 102 78 76% [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]
.......V.--I---.-I....KL...N.S..RSKH...K.F... 90 0 12 26 1 0 51 0 90 47 52% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,R346K,S371L,S373P,S375F,K417N,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...............SG....FANSNK...R..H......... 87 0 87 0 0 0 0 0 87 82 94% [T19I,G142D,L212S,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_
.......V.--I---.-I....KL...NK...RSKH...K.F... 87 1 13 42 3 0 4 24 87 50 57% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,R346K,S371L,S373P,S375F,K417N,N440K,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] Omicron_BA.1.1
.......V.--I---.......KL...NKS..RSKH...K.F... 83 0 59 16 8 0 0 0 83 45 54% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,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............G....FAN......R..H......... 80 0 3 77 0 0 0 0 80 57 71% [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]
.......V.--I---.-I....KL...NKS..RSKH.L.K.F... 77 17 4 56 0 0 0 0 77 70 90% [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,S704L,N764K,D796Y,N856K,Q954H,N969K,L981F] Omicron_BA.1.1
.I---S............G....FA.......R..H......... 75 0 0 75 0 0 0 0 75 33 44% [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---S....I.......G....FANSNK...R..H......... 74 1 1 71 1 0 0 0 74 70 94% [T19I,L24-,P25-,P26-,A27S,V70I,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..T.........G....FANSN....R..H......... 72 0 59 5 8 0 0 0 72 52 72% [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
..---S............G....YANSNK...R..H......... 71 0 1 0 70 0 0 0 71 65 91% [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,E1202Q]
.I---S............G......NSNK...R..H......... 68 1 58 3 2 4 0 0 68 28 41% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S............G....FANSNK...R.IH......... 66 21 19 20 1 0 1 4 66 52 78% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,T547I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
.I---S..V.......G.G....FANSNK...R..H......... 64 4 17 7 36 0 0 0 64 56 87% [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...........SG....FANSN....R..H......... 62 0 51 5 5 0 1 0 62 39 62% [T19I,L24-,P25-,P26-,A27S,G142D,L212S,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
.......V.--I---.-I.....L....KS..RSKH...K.F... 62 0 57 0 2 0 3 0 62 24 38% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,S371L,S373P,S375F,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............G....FANSNK...R..H....S.... 60 32 20 8 0 0 0 0 60 55 91% [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,A879S,Q954H,N969K] Omicron_BA.2
.I..............-IG....FANSNK...R..H......... 59 0 59 0 0 0 0 0 59 52 88% [T19I,G142D,N211-,L212I,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................G.H..FANSNK...R..H......... 58 0 58 0 0 0 0 0 58 42 72% [T19I,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,S1261Y] Omicron_BA.2+P25_,P26_
.I---S.......-....G....FANSNK.Q.R..H.L....... 58 0 1 57 0 0 0 0 58 35 60% [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............G....FANSN....R..H.L....... 57 0 22 34 1 0 0 0 57 47 82% [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...-............G....FANSNK...R..H......... 57 0 57 0 0 0 0 0 57 39 68% [T19I,A27-,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...Y........G....FANSNK...R..H......... 55 27 20 7 0 0 0 1 55 38 69% [T19I,L24-,P25-,P26-,A27S,H69Y,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................G....FANSNK.M.R..H......... 54 0 54 0 0 0 0 0 54 49 90% [T19I,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]
F......V.--I---.-I.....L...NKS..RSKH...K.F... 52 12 11 21 0 0 2 6 52 35 67% [L5F,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......T.........G....FANSNK...R..H......... 51 0 51 0 0 0 0 0 51 37 72% [T19I,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+P25_,P26_
.......V.--I---.--....KL...NKS..RSKH...K.F... 50 5 1 44 0 0 0 0 50 22 44% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212-,+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...--.......G....FANSN....R..H......... 49 0 35 0 6 0 8 0 49 35 71% [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---S............G....FANSNK.R.R..H........H 48 0 48 0 0 0 0 0 48 45 93% [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,D1259H]
.......V.--I---.-I....KL...NKS..RSK....K.F... 46 0 46 0 0 0 0 0 46 28 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,N764K,D796Y,N856K,Q954H,N969K,L981F]
.I---S............G....FA.SNK...R..H......... 46 1 31 5 1 0 0 8 46 36 78% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I..--............G....FANSNK...R..H......... 45 0 45 0 0 0 0 0 45 30 66% [T19I,P26-,A27-,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]
.I---S............G....FANSIK...R..H......... 44 13 22 6 1 2 0 0 44 33 75% [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.......--.......G....FANSNK...R..H......... 42 0 42 0 0 0 0 0 42 37 88% [T19I,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+P25_,P26_
.I---S............G....FANSNK...R..H......R.. 42 14 21 6 0 0 0 1 42 39 92% [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,P1162R] Omicron_BA.2
.I................G..F.FANSNK...R..H......... 41 0 41 0 0 0 0 0 41 37 90% [T19I,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+P25_,P26_
.I---S............G....FANSNK...R..H........Y 41 20 14 6 0 0 0 1 41 35 85% [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,D1259Y] Omicron_BA.2
.I---S............G....FAN..K...R..H......... 41 0 11 23 7 0 0 0 41 34 82% [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]
.I---S............G......N.NK...R..H......... 41 0 40 1 0 0 0 0 41 24 58% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,D405N,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S............G.....AN.NK...R..H......... 40 0 35 5 0 0 0 0 40 26 65% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S373P,S375F,T376A,D405N,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
FI---S..T.........G....FANSNK...R..H......... 40 21 9 0 1 0 0 9 40 27 67% [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............G....FANST....R..H......... 39 0 9 7 22 0 1 0 39 31 79% [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............G....F.NSNK...R..H......... 37 5 10 21 1 0 0 0 37 15 40% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.......V.--I---.-I....TL...NKS..RSKH...K.F... 37 6 2 11 0 0 2 16 37 24 64% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,R346T,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]
.......V.--I---.-I....KL...NKS..RSKH...K.FL.. 37 5 5 19 8 0 0 0 37 25 67% [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,P1162L] Omicron_BA.1.1
.I---S..M.........G....FANSNK...R..H......... 36 24 9 3 0 0 0 0 36 32 88% [T19I,L24-,P25-,P26-,A27S,I68M,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............G....FANSN.......H......... 36 0 30 4 2 0 0 0 36 11 30% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S.S..........G....FANSNK...R..H......... 35 18 9 0 2 0 0 6 35 31 88% [T19I,L24-,P25-,P26-,A27S,A67S,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
.R.............-..............R....R......... 35 0 8 13 9 2 0 3 35 5 14% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
.I---S............G....FANSNK...R..Y......... 33 21 10 2 0 0 0 0 33 30 90% [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]
FI---S............G....FANSNK...R..H.L....... 33 4 13 13 3 0 0 0 33 27 81% [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,S704L,N764K,D796Y,Q954H,N969K] Omicron_BA.2
....L..V.--I---.-I....KL...NKS..RSKH...K.F... 32 16 1 14 0 0 1 0 32 30 93% [P26L,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............G....FANSNK...R..H.....I... 32 12 15 2 3 0 0 0 32 22 68% [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,L981I] Omicron_BA.2
.I---S............G....F...NK...R..H......... 32 0 3 29 0 0 0 0 32 17 53% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
FI---S...--.......G....FANSNK.RV...H......... 31 0 18 2 0 11 0 0 31 23 74% [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
.......V.--I---.-I....KL...NKS..RSKH...K.FS.. 30 5 4 20 1 0 0 0 30 28 93% [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,P1162S] Omicron_BA.1.1
.I---S.......-...FG....FANSNK...R..H......... 30 1 0 29 0 0 0 0 30 29 96% [T19I,L24-,P25-,P26-,A27S,G142D,Y144-,L212F,+212MAEL,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.............L..G....FANSNK...R..H......... 30 0 30 0 0 0 0 0 30 14 46% [T19I,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+P25_,P26_
.I---S..R.........G....FANSNK...R..H......... 30 2 26 1 1 0 0 0 30 30 100% [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
.......V.--I---.-I...FKL...NKS..RSKH...K.F... 29 5 0 23 1 0 0 0 29 28 96% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,S255F,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............GL...FANSNK...R..H......... 29 5 20 0 1 0 0 3 29 25 86% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,R214L,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............G....FANSTK...R..H......... 29 0 0 0 29 0 0 0 29 27 93% [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..V.........G....FANSNK...R..H......... 28 0 24 3 0 0 0 1 28 16 57% [T19I,L24-,P25-,P26-,A27S,I68V,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,R1014T] Omicron_BA.2
.......V.--I---L-I....KL...NKS..RSKH...K.F... 28 2 3 20 3 0 0 0 28 20 71% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,F157L,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............G...TFANSN....R..H......... 28 0 26 0 1 0 1 0 28 22 78% [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
.I---S............G...KFANSNK...R..H......... 27 2 18 5 1 0 0 1 27 23 85% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,R346K,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................G....FANSNK...R..H......S.. 27 0 27 0 0 0 0 0 27 26 96% [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,P1162S] Omicron_BA.2+P25_,P26_
.......V.--I---S-I....KL...NKS..RSKH...K.F... 27 1 19 6 1 0 0 0 27 17 62% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,F157S,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............G....FANSN..M.R..H......... 27 0 21 5 1 0 0 0 27 14 51% [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...--.......G....FANSN..RV...H......... 27 0 24 0 3 0 0 0 27 18 66% [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.....S......G....FANSNK...R..H......... 26 19 6 0 0 0 0 1 26 25 96% [T19I,L24-,P25-,P26-,A27S,T95S,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
.......V.--I---.-I.....F.N.TKS..R..H......... 26 6 16 3 0 0 0 1 26 25 96% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,G339D,S371F,S373P,S375F,D405N,K417T,N440K,G446S,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S............G..F.FANSNK.M.R..H......... 25 0 24 1 0 0 0 0 25 23 92% [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
.......V.--I---.-I.....L...TKS..RSKH...K.F... 25 0 5 15 0 0 3 2 25 9 36% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,S371L,S373P,S375F,K417T,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] Omicron_BA.1
.......V.--I---.-I....KF...NKS..RSKH...K.F... 24 1 8 13 2 0 0 0 24 14 58% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,R346K,S371F,S373P,S375F,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F]
.L---S............G....FAN.NK...R..H..D...... 24 0 0 24 0 0 0 0 24 23 95% [T19L,L24-,P25-,P26-,A27S,G142D,V159I,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,G798D,Q954H,N969K]
.......V.--I---.-I.....L...N.S..RSKH...K.F... 23 0 5 3 1 0 14 0 23 15 65% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,S371L,S373P,S375F,K417N,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............G...KL.NSNK...R..H......... 23 3 4 15 1 0 0 0 23 23 100% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,R346K,S371L,S373P,S375F,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S............G.....A.......R..H......... 23 0 0 23 0 0 0 0 23 13 56% [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................G....FANSNK.R.R..H......... 22 0 22 0 0 0 0 0 22 22 100% [T19I,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]
.......V.--I---.-I.....L...NK...RSKH...K.F... 22 1 4 12 0 0 2 3 22 7 31% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,S371L,S373P,S375F,K417N,N440K,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] Omicron_BA.1
.I---S............G..P.FANSNK...R..H......... 22 1 3 5 9 0 0 4 22 16 72% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,S255P,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............G....FAN......R..H.L....... 22 0 0 22 0 0 0 0 22 18 81% [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]
.......V.--I---.-I....KL...NKSM.RSKH...K.F... 21 2 1 14 3 0 0 1 21 13 61% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,R346K,S371L,S373P,S375F,K417N,N440K,G446S,L452M,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............GS...FANSNK...R..H......... 21 1 3 16 1 0 0 0 21 21 100% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,R214S,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...........SG....FANSNK...R..H......... 21 5 0 15 0 1 0 0 21 19 90% [L5F,T19I,L24-,P25-,P26-,A27S,G142D,L212S,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..K.........G....FANSNK...R..H......... 20 12 7 0 0 0 0 1 20 15 75% [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............G.D..FANSNK...R..H......... 20 1 12 2 5 0 0 0 20 9 45% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,+247SVL,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
FI---S............G....FAN.NK...R..H......... 20 0 11 6 3 0 0 0 20 17 85% [L5F,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............G....FA.......R..H.L....... 20 0 0 20 0 0 0 0 20 14 70% [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]
FI---S............G..F.FANSNK...R..H......... 20 5 4 11 0 0 0 0 20 15 75% [L5F,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
.......V.--I---.-I....KL...NKS...SKH...K.F... 19 8 2 8 1 0 0 0 19 8 42% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,R346K,S371L,S373P,S375F,K417N,N440K,G446S,S477N,T478K,E484A,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F]
.I---S....F.......G....FANSNK...R..H......... 19 7 11 1 0 0 0 0 19 15 78% [T19I,L24-,P25-,P26-,A27S,V70F,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............G....FANSNK...R..H.......V. 19 13 2 4 0 0 0 0 19 15 78% [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,I1221V] Omicron_BA.2
.I---S.....I......G....FANSNK...R..H......... 19 5 9 4 0 0 0 1 19 15 78% [T19I,L24-,P25-,P26-,A27S,T95I,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
.......V.--I---.-I.....L........RSKH...K.F... 19 0 0 19 0 0 0 0 19 6 31% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,S371L,S373P,S375F,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,D796Y,N856K,Q954H,N969K,L981F]
.I---S............G.....ANS.K...R..H......... 19 0 9 0 10 0 0 0 19 6 31% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S373P,S375F,T376A,D405N,R408S,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764X,D796Y,Q954H,N969K]
.I---SR...........G....FANSN....R..H......... 19 0 15 2 2 0 0 0 19 11 57% [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............G....FANSNK...R..R......... 18 0 13 4 1 0 0 0 18 17 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,P681R,N764K,D796Y,Q954H,N969K]
.I---S............G....FANSNKD..R..H......... 18 13 4 1 0 0 0 0 18 14 77% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446D,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
.I---S............G....FANSNKS..R..H......... 18 2 8 4 1 0 1 2 18 13 72% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
.I---S.........L..G....FANSN....R..H......... 18 0 13 0 5 0 0 0 18 11 61% [T19I,L24-,P25-,P26-,A27S,G142D,F157L,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............G....FANSNK.Q....H.L....... 18 0 0 18 0 0 0 0 18 9 50% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,L452Q,S477N,T478K,E484A,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
.I---S............G....L.NSNK...R..H......... 18 1 4 13 0 0 0 0 18 18 100% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371L,S373P,S375F,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S............G....FANSNK...R..HS........ 17 0 17 0 0 0 0 0 17 8 47% [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,A701S,N764K,D796Y,L849I,Q954H,N969K] Omicron_BA.2
..................G....FANSNK...R..H......... 17 0 14 2 1 0 0 0 17 13 76% [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]
.I---S............G....FA..NK...R..H......... 17 0 0 10 1 6 0 0 17 15 88% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.......V.--I---.-I..H.KL...NKS..RSKH...K.F... 16 11 0 5 0 0 0 0 16 10 62% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,Y248H,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............G....FAN.N....R..H......... 16 0 5 10 1 0 0 0 16 14 87% [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,N764K,D796Y,Q954H,N969K]
.I---S............G..F.FANSN....R..H......... 16 0 11 3 2 0 0 0 16 10 62% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,S255F,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............G....FAN.NK...R..H....V.... 16 0 0 16 0 0 0 0 16 15 93% [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,A879V,Q954H,N969K]
.R.........I...-.............RR....R......... 16 0 0 0 0 0 0 16 16 8 50% [T19R,T95I,G142D,E156G,F157-,R158-,G446R,L452R,T478K,Q613H,D614G,P681R,D950N,L1063F]
.I---S............G....F.NSN....R..H......... 16 0 15 1 0 0 0 0 16 9 56% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,D405N,R408S,K417N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---SC...........G....FANSNK...R..H......... 15 2 3 8 2 0 0 0 15 12 80% [T19I,L24-,P25-,P26-,A27S,W64C,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............G....FAN.NK...R..H.L....... 15 0 8 7 0 0 0 0 15 9 60% [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....R...........G....FANSNK...R..H......... 15 0 15 0 0 0 0 0 15 15 100% [T19I,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+P25_,P26_
.R.........I...-..............R....R......... 15 3 7 4 1 0 0 0 15 10 66% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
.......V.--I--..-I....KL...NKS..RSKH...K.F... 15 3 5 7 0 0 0 0 15 8 53% [A67V,H69-,V70-,T95I,G142-,V143-,Y144-,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
.......V.--I---.-I.....F...NKS..RSKH...K.F... 15 1 4 4 1 0 2 3 15 7 46% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,S371F,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---.-I....KL...NKS..RSKH...K.F... 15 0 15 0 0 0 0 0 15 10 66% [H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,G339D,R346K,S371L,S373P,S375F,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F]
.I---S...Y........G....FANSNK.Q.R..H.L....... 15 0 0 15 0 0 0 0 15 10 66% [T19I,L24-,P25-,P26-,A27S,H69Y,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............G....FANSN....R..H..D...... 15 0 10 1 3 0 1 0 15 8 53% [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,G798D,Q954H,N969K] Omicron_BA.2
.I---S.........S..G....FANSN....R..H......... 15 0 10 0 5 0 0 0 15 8 53% [T19I,L24-,P25-,P26-,A27S,G142D,F157S,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
.......V.--I---.-I.....L....KS..RSKHV..K.F... 15 0 15 0 0 0 0 0 15 5 33% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,S371L,S373P,S375F,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,F643L,H655Y,N679K,P681H,A701V,N764K,D796Y,N856K,Q954H,N969K,L981F] Omicron_BA.1
.I---S..T.........G....FANSNK...R............ 15 0 14 0 1 0 0 0 15 9 60% [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,N764K,D796Y,Q954H,N969K]
FI---S............G....FANSNK...R............ 15 0 14 1 0 0 0 0 15 5 33% [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,N764K,D796Y,Q954H,N969K]
.I---S............G......NSN....R..H......... 15 0 15 0 0 0 0 0 15 8 53% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,D405N,R408S,K417N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S.........L..G....FANSNK.Q.R..H.L....... 15 0 0 15 0 0 0 0 15 15 100% [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
.......V.--I---.-I.....L...NKS...SKH...K.F... 14 0 4 6 1 2 1 0 14 3 21% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,S371L,S373P,S375F,K417N,N440K,G446S,N460K,S477N,T478K,E484A,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F]
.......V.--I---.-I....KL...NKS..RSKH...K.F..H 14 0 8 6 0 0 0 0 14 12 85% [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,D1259H] Omicron_BA.1.1
.I---S...--.......G....FAN.NK.RV...H......... 14 0 3 1 3 7 0 0 14 5 35% [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,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S............G....FANSNKS..RSKH......... 14 0 14 0 0 0 0 0 14 14 100% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
.I---S............G........NK...R..H......... 14 0 13 0 0 1 0 0 14 8 57% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.......V-T-I---.-I....KL...NKS..RSKH...K.F... 14 12 0 2 0 0 0 0 14 12 85% [A67V,I68-,H69T,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]
FI---S...--.......G....FANSNK...R..H......... 14 4 8 0 0 0 0 2 14 14 100% [L5F,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
.I---S............G....FAN.TK...R..H......... 14 0 13 1 0 0 0 0 14 13 92% [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]
.I---S..........D.G....FANSNK...R..H......... 13 9 4 0 0 0 0 0 13 10 76% [T19I,L24-,P25-,P26-,A27S,G142D,N211D,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......G....FANSNK...R..H......... 13 1 8 4 0 0 0 0 13 12 92% [T19I,L24-,P25-,P26-,A27S,T95A,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........H...G....FANSNK...R..H......... 13 5 2 5 0 0 0 1 13 8 61% [T19I,L24-,P25-,P26-,A27S,G142D,Y145H,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............G....FAN.NK...R............ 13 0 13 0 0 0 0 0 13 6 46% [T19I,L24-,P25-,P26-,A27S,V47X,L48X,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,N764K,D796Y,Q954H,N969K]
.I---S............G...KL...NK...R..H......... 13 0 3 6 4 0 0 0 13 9 69% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,R346K,S371L,S373P,S375F,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S............G....L...NK...R..H......... 13 0 8 2 2 0 1 0 13 11 84% [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............G....FANSN....R..H......L.. 13 0 8 4 1 0 0 0 13 11 84% [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,P1162L] Omicron_BA.2
.I................G....FANSNK...R..H....V.... 13 0 13 0 0 0 0 0 13 10 76% [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,A879V,A890V,Q954H,N969K] Omicron_BA.2+P25_,P26_
.I---S..T.........G....FANSNK...R..H........H 13 0 13 0 0 0 0 0 13 12 92% [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,D1259H] Omicron_BA.2
FI---S............G....FANSTK...R..H......... 12 11 0 1 0 0 0 0 12 10 83% [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............G...KL..SNK...R..H......... 12 1 3 6 2 0 0 0 12 10 83% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,R346K,S371L,S373P,S375F,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
............................................. 12 0 9 2 0 0 1 0 12 4 33% [+214RRAT,H245X,D614G,Q675-,T676-,Q677-,T678S,N679-,S680-,R682X,R683X]
.I.---............G....FANSNK...R..H......... 12 5 5 0 1 1 0 0 12 10 83% [T19I,P25-,P26-,A27-,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............G.H..FANSN....R..H......... 12 0 10 1 0 0 1 0 12 4 33% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,Y248H,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,S1261Y] Omicron_BA.2
FI---S............G.....ANSNK...R..H......... 11 3 8 0 0 0 0 0 11 7 63% [L5F,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]
.......V.--I---........L...NKS..RSKH...K.F... 11 0 8 2 0 0 0 1 11 6 54% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,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..-.........G....FANSNK...R..H......... 11 11 0 0 0 0 0 0 11 11 100% [T19I,L24-,P25-,P26-,A27S,I68-,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
.......V.--I---.-I....KL...NKS..RSKH...K..... 11 0 8 2 1 0 0 0 11 6 54% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,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]
.......V.--I---S-I....KL...NK.M.RSKH...K.F... 11 0 0 11 0 0 0 0 11 6 54% [A67V,H69-,V70-,G72E,T95I,G142D,V143-,Y144-,Y145-,F157S,N211-,L212I,+214EPE,G339D,R346K,S371L,S373P,S375F,K417N,N440K,L452M,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] Omicron_BA.1.1
.I.....V.--I---.-I....KL...NKS..RSKH...K.F... 11 1 0 10 0 0 0 0 11 10 90% [T19I,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
.......V.--I---.-I....KLA..NKS..RSKH...K.F... 11 1 0 9 1 0 0 0 11 5 45% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,R346K,S371L,S373P,S375F,T376A,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
.......V.--I---.-I.....L...TKS..RSKHV..K.F... 11 1 0 10 0 0 0 0 11 7 63% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,M177I,N211-,L212I,+214EPE,G339D,S371L,S373P,S375F,K417T,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,A701V,N764K,D796Y,N856K,Q954H,N969K,L981F] Omicron_BA.1
.I---S............G....FANSNK...R..H...S..... 11 3 4 3 0 0 0 1 11 8 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,N856S,Q954H,N969K] Omicron_BA.2
.......V.--I---.--.....L...NKS..RSKH...K.F... 11 0 0 8 0 0 1 2 11 5 45% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212-,+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............G....FSNSNK...R..H......... 11 2 4 1 0 4 0 0 11 11 100% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376S,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...--.......G....FAN.NK...R..H......... 11 0 4 3 3 0 1 0 11 8 72% [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............G....FANS.....R..H......... 11 0 4 6 1 0 0 0 11 8 72% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S............G....FANSNK...R..H......Q.. 11 1 7 0 1 0 0 2 11 10 90% [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,P1162Q] Omicron_BA.2
.I---S............G....FANSNK...RS.H......... 11 1 3 5 2 0 0 0 11 8 72% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.2
.I---S..T.........G....FAN.NK...R..H......... 11 0 5 2 3 0 1 0 11 6 54% [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]
.I---S............G.S..FANSN....R..H......... 11 0 6 4 1 0 0 0 11 5 45% [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
.I---S...........SG....FANSNK...R............ 11 0 11 0 0 0 0 0 11 7 63% [T19I,L24-,P25-,P26-,A27S,G142D,L212S,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................G....F.NSNK...R..H......... 11 0 0 0 11 0 0 0 11 7 63% [T19I,G142X,V213G,G339D,S371F,D405N,R408S,K417N,N440K,E484A,Q493R,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---SR...........G....FANSNK...R..H........H 11 0 11 0 0 0 0 0 11 11 100% [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,D1259H] Omicron_BA.2
.I---S............G....FANSNK...R..H.......M. 10 1 2 6 1 0 0 0 10 10 100% [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,N679K,P681H,N764K,D796Y,Q954H,N969K,I1221M] Omicron_BA.2
.I---S..........S.G....FANSNK...R..H......... 10 3 6 1 0 0 0 0 10 9 90% [T19I,L24-,P25-,P26-,A27S,G142D,N211S,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
.......V.--I---.-I.....L...NKS..RSKH...K.FL.. 10 3 4 1 0 0 2 0 10 5 50% [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,P1162L] Omicron_BA.1
.IS-H-............G....FANSNK...R..H......... 10 3 0 3 4 0 0 0 10 9 90% [T19I,L24S,P25-,P26H,A27-,Y28-,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]
.......V.--I---.-I....KL...NKS..RSKHV..K.F... 10 8 1 1 0 0 0 0 10 7 70% [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,A701V,N764K,D796Y,N856K,Q954H,N969K,L981F] Omicron_BA.1.1
FI---S............G....FANSNK...R..H......L.. 10 6 2 2 0 0 0 0 10 6 60% [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,P1162L] Omicron_BA.2
-I---S............G....FANSNK...R..H......... 10 0 10 0 0 0 0 0 10 10 100% [L5-,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
.......V.--I---.-I....KL...N....RSKH...K.F... 10 0 6 4 0 0 0 0 10 4 40% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,R346K,S371L,S373P,S375F,K417N,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....G.......G....FANSNK...R..H......... 10 5 3 0 2 0 0 0 10 3 30% [V3G,T19I,L24-,P25-,P26-,A27S,V70G,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............G.....A..NK...R..H......... 10 0 7 3 0 0 0 0 10 3 30% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S373P,S375F,T376A,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---SC...........G....FANSNK.M.R..H......... 10 0 0 10 0 0 0 0 10 9 90% [T19I,L24-,P25-,P26-,A27S,W64C,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.-..............G....FANSNK...R..H......... 10 0 10 0 0 0 0 0 10 6 60% [T19I,P25-,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]
.I---S............G....FANSN....R..H......S.. 10 0 3 3 1 0 3 0 10 4 40% [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,P1162S] Omicron_BA.2
.I---S..R.........G....FANSN....R..H......... 10 0 9 0 0 0 1 0 10 8 80% [T19I,L24-,P25-,P26-,A27S,I68R,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............G....F...NK.Q.R..H.L....... 10 0 0 10 0 0 0 0 10 6 60% [T19I,L24-,P25-,P26-,A27S,G142D,V213G,G339D,S371F,S373P,K417N,N440K,L452Q,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
.I---S............G..F.FANSNK.Q.R..H.L....... 10 0 0 10 0 0 0 0 10 5 50% [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
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last modified: Thu Apr 21 17:09 2022
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