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 28, 2023
Delta and Omicron Variants
Global
Wuhan reference
Download
 | |
 |
 |
 |
 |
Evaluating 127396 sequences of length 1689
Sampled from 2023-03-29 to 2023-05-23.
Specified Date Range: ['2023-03-29', '2023-05-28']
Highest entropy sites for: Global
Site Entropy
146 0.6498
486 0.5073
252 0.4930
478 0.4225
144 0.4152
213 0.4117
445 0.4061
83 0.3977
368 0.3839
183 0.3809
490 0.3389
180 0.3298
452 0.3277
257 0.3086
157 0.2931
147 0.2755
444 0.2642
339 0.2545
152 0.2501
210 0.2450
446 0.2156
70 0.2079
69 0.2073
613 0.2050
521 0.2000
253 0.1799
346 0.1489
460 0.1361
547 0.1327
215 0.1240
356 0.1085
456 0.1048
408 0.1022
417 0.0903
185 0.0900
27 0.0852
142 0.0792
19 0.0756
184 0.0712
24 0.0697
883 0.0635
5 0.0589
256 0.0575
573 0.0573
25 0.0565
323 0.0538
182 0.0531
1045 0.0527
621 0.0498
26 0.0493
Most highly correlated site-pairs for: Global
cramerV mutInfo
445 368 0.5756 0.3589
445 183 0.3692 0.3492
213 368 0.5639 0.3489
213 445 0.3982 0.3482
368 183 0.5650 0.3473
445 83 0.3632 0.3425
83 368 0.5561 0.3412
213 183 0.4013 0.3408
146 368 0.5516 0.3361
146 445 0.3615 0.3357
213 83 0.3928 0.3346
83 183 0.3623 0.3316
146 83 0.3602 0.3303
146 213 0.3919 0.3300
146 183 0.3392 0.3298
27 26 0.9980 0.0485
25 26 0.9914 0.0475
24 26 0.9024 0.0437
157 26 0.8804 0.0343
24 25 0.7855 0.0452
339 26 0.7797 0.0309
213 26 0.7645 0.0299
346 26 0.7229 0.0279
27 25 0.7128 0.0493
256 26 0.7007 0.0283
27 24 0.6978 0.0574
452 444 0.6570 0.1920
452 456 0.6490 0.0027
446 456 0.6432 0.0018
157 27 0.6149 0.0341
Most common patterns for local area, where Local = Global
1
11111111111222222233333444444444445556680
1222267844445588888111555523456014445567892471284
59456790324672702345035236739668874562608601733135
LTLPPAHVVGYHKWFEKQGNIVDGDSGTGRKLRKKVGLFNTFFPTTQPTK Global UK Eu-UK NAmer Asia Africa SAmer Ocean Local Exact Pct [Context]
127396 9112 33834 42389 31251 917 2394 7499 73000 <----------- Totals
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KKPS....... 35840 1438 10071 16216 6418 123 592 982 35840 21581 60% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q...V.E...E.V....HT.ISN.PS..KRPS....... 3095 59 246 942 1562 8 2 276 3095 2224 71% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KKPS...H... 2296 57 1101 344 547 14 1 232 2296 1385 60% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-K.....E...E.V....HT.ISN.PS..KKPS....... 1894 49 463 951 314 2 45 70 1894 1065 56% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q...V.E...E.V....HT.ISN.PS..KRPS.I..... 1462 16 109 288 961 6 1 81 1462 1131 77% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,T547I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL.....VG....S.HTT.SN..S..KK.S....... 1425 2 52 13 1350 0 0 8 1425 734 51% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,G257S,G339H,R346T,K356T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,N460K,S477N,T478K,E484A,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS.LKKPS....... 1234 26 149 709 241 3 84 22 1234 801 64% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,F456L,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD.-.....E...E.V....HT.ISN.PS..KKPS....... 898 4 603 89 181 0 1 20 898 551 61% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y145X,H146-,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL.....VG....S.HT..SNT.SR.KKS........ 890 114 420 127 147 36 1 45 890 393 44% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,G257S,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,G446S,L452R,N460K,S477N,T478K,E484A,F486S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D...........G......DT..SN...R..KV........ 846 1 18 11 815 0 1 0 846 368 43% [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,C1243F] Omicron_BA.4andBA.5
.I---S..AD-Q.....E...E..G...HT.ISN.PS..KKPSS...... 842 22 240 213 314 0 8 45 842 482 57% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D...........G......D...SN...R..KV........ 765 1 11 16 737 0 0 0 765 426 55% [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......DT..SNT..R.KKV........ 695 8 185 318 176 2 2 4 695 272 39% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S...D..ERL.....VG....S.HT..SN..S..KKPS....... 684 40 175 84 268 0 0 117 684 426 62% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,G257S,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KRPS....... 664 37 81 260 248 9 0 29 664 342 51% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KKPS..I.... 662 6 73 480 49 0 4 50 662 420 63% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,T573I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL....DVG....S.HT..SNT.SR.KKS........ 650 226 204 53 77 1 3 86 650 332 51% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,N185D,I210V,V213G,G257S,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,G446S,L452R,N460K,S477N,T478K,E484A,F486S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KKPS.....I. 573 13 104 401 24 1 5 25 573 396 69% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,T883I,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KKPSS...... 516 25 331 104 43 0 6 7 516 323 62% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,I410V,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL....DVG....S.HT..SNT.SR.KKS....H... 498 54 182 202 32 0 0 28 498 191 38% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,L176F,N185D,I210V,V213G,G257S,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,G446S,L452R,N460K,S477N,T478K,E484A,F486S,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D-..........G......DT..SNT..R.KKV........ 480 12 152 99 202 2 1 12 480 149 31% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S...D..ERL.....VGG...S.HT..SNT.SR.KKS....H... 471 8 80 72 58 0 0 253 471 281 59% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,D215G,G257S,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,G446S,L452R,N460K,S477N,T478K,E484A,F486S,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KKPS......R 470 31 326 90 20 0 1 2 470 324 68% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,K1045R]
FI---S..AD-Q.....E...E.V....HT.ISN.PS..KKPS....... 467 19 151 197 76 2 3 19 467 276 59% [L5F,T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....EV..E..G...HT.ISN.PS..KKPSS...... 450 0 17 101 315 0 0 17 450 304 67% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,G184V,V213E,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.IS..PS..KKPS....... 438 0 203 133 88 0 14 0 438 265 60% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KKPS....S.. 422 6 65 331 16 0 0 4 422 284 67% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,P621S,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I.S.....D-...-.......H..L...S..SN..SR..KP........ 393 2 0 4 4 0 0 383 393 300 76% [T19I,P25S,G142D,Y144-,E156G,F157-,R158-,P209L,L212S,D215H,A222V,A243-,L244-,S256L,R346S,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,L452R,S477N,T478K,E484A,F486P,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N703I,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V...IHT.ISN.PS..KKPS....... 301 16 188 71 26 0 0 0 301 194 64% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,T323I,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...EHV....HT.ISN.PS..KKPS....... 286 23 179 41 37 0 0 6 286 147 51% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,D215H,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.I.N.PS..KKPS....... 230 0 84 37 37 3 69 0 230 145 63% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q....NE...E..G...HT.ISN.PS..KKPSS...... 223 1 54 80 80 2 1 5 223 150 67% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,K182N,Q183E,V213E,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-QI....E...E.V....HT.ISN.PS..KKPS....... 212 1 1 208 1 0 0 1 212 148 69% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,K147I,Q183E,V213E,G252V,T284I,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E......HT.ISN.PS..KKPS....... 189 0 6 166 13 3 1 0 189 81 42% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E..G...HT.ISN.PS..KRPSS...... 181 0 7 28 140 0 0 6 181 138 76% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D...........G....D.DT..SN...R..KV........ 176 0 0 0 176 0 0 0 176 129 73% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G257D,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..AD-Q.....E...E.V....HT.ISN.SS..KKPS....... 175 1 19 27 125 0 0 3 175 141 80% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,E281D,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445S,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E..G...HT.ISN.PS..KKSSS...... 165 0 1 6 0 3 155 0 165 138 83% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486S,F490S,Q498R,N501Y,Y505H,P521S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..---S..AD-Q.....E...E.V....HT.ISN.PS..KKPS....... 154 0 124 6 21 1 0 2 154 86 55% [L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D-Q.....E...E.V....HT.ISN.PS..KKPS....... 153 0 123 18 12 0 0 0 153 76 49% [T19I,L24-,P25-,P26-,A27S,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KKPST...... 143 2 19 120 2 0 0 0 143 73 51% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521T,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q...V.E...E.V....HT.IS..PS..KRPS....... 142 0 2 2 138 0 0 0 142 98 69% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D-...L......G......DT..SNT..R.KKV........ 129 2 110 11 6 0 0 0 129 47 36% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,F157L,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,V1264L] Omicron_BA.4andBA.5
.I---S...D..ERL.....VG....S.HT..SNT.SR.KKS......I. 127 20 24 51 24 7 0 1 127 57 44% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,G257S,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,G446S,L452R,N460K,S477N,T478K,E484A,F486S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,T883I,Q954H,N969K]
.I---S..A.-Q.....E...E.V....HT.IS..PS..KKPS....... 125 0 120 3 2 0 0 0 125 79 63% [T19I,L24-,P25-,P26-,A27S,V83A,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD.-.....E...E.V....HT.ISN.PS..KKPS...H... 110 1 94 2 6 0 0 7 110 75 68% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y145X,H146-,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V.L..HT.ISN.PS..KKPS....... 109 0 30 40 38 0 0 1 109 68 62% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,S256L,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD.Q.....E...E.V....HT.ISN.PS..KKPS....... 109 0 14 45 47 0 0 3 109 42 38% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL.....VG....S.HT..SNT.SR.KKS....H... 104 5 71 19 2 0 0 7 104 62 59% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,G257S,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,G446S,L452R,N460K,S477N,T478K,E484A,F486S,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D-..........G......D...SNT..R.KKV........ 103 5 14 31 52 0 0 1 103 43 41% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,I666V,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I.-----AD-Q.....E...E.V....HT.ISN.PS..KKPS....... 99 0 1 0 91 0 0 7 99 71 71% [T19I,P25-,P26-,A27-,H69-,V70-,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...EVV....HT.ISN.PS..KKPS....... 91 0 2 0 89 0 0 0 91 78 85% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,D215V,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL.....VG....S.HT..SN..SR.KKI........ 86 18 2 19 13 0 0 34 86 47 54% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,G257S,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,L452R,N460K,S477N,T478K,E484A,F486I,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D...........G......DT..SNT..R.KKV....H... 81 1 67 11 2 0 0 0 81 39 48% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,+246N,Y248-,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S--.D...........G......D...SNT..R.KKV........ 76 0 11 49 15 0 1 0 76 27 35% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S..AD-K.....E...E.V....HT.ISN.PS.LKKPS....... 75 0 6 60 7 0 2 0 75 53 70% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,F456L,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q..L..E...E.V....HT.ISN.PS..KKPS....... 74 2 18 35 18 0 0 1 74 49 66% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,F157L,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-......E...E.V....HT.ISN.PS..KKPS....... 71 1 16 21 29 2 0 2 71 33 46% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD.-...V.E...E.V....HT.ISN.PS..KRPS....... 69 0 12 1 52 0 0 4 69 39 56% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y145X,H146-,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
FI---S..AD-Q...V.E...E.V....HT.ISN.PS..KRPS....... 69 0 4 12 23 0 0 30 69 53 76% [L5F,T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD.K.....E...E.V....HT.ISN.PS..KKPS....... 68 0 13 36 9 2 1 7 68 30 44% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,H146K,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..A.-Q.....E...E.V....HT.ISN.PS..KKPS....... 66 1 23 21 21 0 0 0 66 38 57% [T19I,L24-,P25-,P26-,A27S,V83A,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D-Q...V.E...E.V....HT.ISN.PS..KRPS....... 65 0 2 1 62 0 0 0 65 15 23% [T19I,L24-,P25-,P26-,A27S,G142D,Y144-,H146Q,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KKPP....... 63 2 44 11 5 0 1 0 63 35 55% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490P,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-K...V.E...E.V....HT.ISN.PS..KRPS....... 60 3 5 15 30 0 0 7 60 45 75% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KKSS....... 58 0 12 24 19 0 2 1 58 15 25% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,Y453F,N460K,S477N,T478K,E484A,F486S,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.L---S..AD-Q.....E...E.V....HT.ISN.PS..KKPS....... 58 1 20 28 5 0 1 3 58 39 67% [T19L,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E....S.HT.ISN.PS..KKPS....... 58 0 3 55 0 0 0 0 58 31 53% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G257S,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KKPS.I..... 57 0 14 32 11 0 0 0 57 39 68% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,T547I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL.....VG....S.HTT..N..S..KK.S....... 56 0 0 0 56 0 0 0 56 5 8% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,Y170X,V171X,S172X,Q173X,P174X,F175X,I210V,V213G,G257S,G339H,R346T,K356T,S371F,S373P,T376A,D405N,K417N,N440K,G446S,N460K,S477N,T478K,E484A,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.R...E...E.V....HT.ISN.PS..KKPS....... 54 0 29 21 1 0 1 2 54 38 70% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,W152R,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I.S.....D-...-.......H..L......SN..SM..KP........ 53 0 0 1 13 0 0 39 53 37 69% [T19I,P25S,G142D,Y144-,E156G,F157-,R158-,P209L,L212S,D215H,A222V,A243-,L244-,S256L,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,L452M,S477N,T478K,E484A,F486P,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N703I,N764K,D796Y,Q954H,N969K]
.I---SY.AD-Q.....E...E.V....HT.ISN.PS..KKPS....... 50 0 17 23 6 0 0 4 50 32 64% [T19I,L24-,P25-,P26-,A27S,H69Y,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD.-.....E...E.V....HT.ISN.PS..KRPS....... 48 0 6 0 42 0 0 0 48 31 64% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y145X,H146-,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..A--Q.....E...E.V....HT.ISN.PS..KKPS....... 48 2 8 11 27 0 0 0 48 31 64% [T19I,L24-,P25-,P26-,A27S,V83A,L141-,G142-,V143-,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D-...L......G......DT..SNT..R.KKV....H... 48 0 9 36 1 0 2 0 48 21 43% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,F157L,V213G,P251L,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S..AD-K.....E...E.V....HT.ISN.PS..KKPS...H... 48 3 13 5 20 0 0 7 48 30 62% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HTTISN.PS..KKPS....... 47 0 4 31 10 0 0 2 47 17 36% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,K356T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,T572I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E..G...HT.ISN.PS..KNPSS...... 47 0 1 18 25 0 0 3 47 32 68% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478N,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--AD-Q.....E...E.V....HT.ISN.PS..KKPS....... 47 1 5 3 37 1 0 0 47 15 31% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D..E........G......DT..SNT..R.KKV........ 46 0 10 36 0 0 0 0 46 35 76% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,K147E,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S..AD-Q.....E...E..G...HT.ISN.PS..KQPSS...... 46 0 2 14 22 0 0 8 46 29 63% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478Q,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D..I........G......DT..SNT..R.KKV........ 45 0 22 16 7 0 0 0 45 17 37% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,K147I,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S..AD-Q.....E...E..G...HT.ISN.PS..KKPS....... 45 5 26 4 5 1 4 0 45 22 48% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....H..IS..PS..KKPS....... 45 0 0 0 0 0 45 0 45 21 46% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,L229X,P230X,I231X,G232X,I233X,N234X,I235X,T236X,R237X,F238X,Q239X,T240X,L241X,L242X,A243X,G252V,G339H,L368I,S371F,S373P,S375F,T376A,D405N,R408S,N440K,V445P,G446S,L455-,+456L,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D-..........G......D...SNN..R.KKV........ 44 0 8 3 32 0 0 1 44 10 22% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444N,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,V1264L] Omicron_BA.4andBA.5
.I---S..AD-Q.....E...E.V....HT.ISN.PS..K.PS....... 43 2 14 12 10 4 0 1 43 16 37% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KRSS....... 41 0 0 1 39 0 0 1 41 29 70% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,Y453F,N460K,S477N,T478R,E484A,F486S,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q...V.E...E.V....HT.ISN.PS..KRPST...... 40 1 6 17 13 1 0 2 40 16 40% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521T,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q...V.E...E.V....HT.ISN.PS..KRPS..I.... 38 0 10 4 24 0 0 0 38 25 65% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,T573I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..N........G....D.DT..SNR.SM.KKS........ 38 1 1 3 33 0 0 0 38 31 81% [T19I,L24-,P25-,P26-,A27S,G142D,K147N,M153T,N164K,V213G,H245N,G257D,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444R,G446S,N450D,L452M,N460K,S477N,T478K,E484R,F486S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D-...L......G......D...SNT..R.KKV........ 37 1 28 4 4 0 0 0 37 25 67% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,F157L,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S..AD-Q.....E...E.V....HT.ISN.PS...KPS....... 37 0 17 9 1 1 0 9 37 24 64% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.R.......D...L-......G..G...DT..SN..DR..KP.....S.. 36 1 27 0 7 0 0 1 36 11 30% [L18F,T19R,R21G,T95I,G142D,W152L,E156G,F157-,R158-,F186L,V213G,D253G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446D,L452R,S477N,T478K,E484A,F486P,Q498R,N501Y,Y505H,D614G,P621S,H655Y,N679K,P681H,A706V,N764K,D796Y,Q954H,N969K,T1117I,D1153Y]
.I---S...D..ERL.....VG....S.HTT.SN.AS..KK.S....... 36 0 0 0 36 0 0 0 36 25 69% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,G257S,G339H,R346T,K356T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445A,G446S,N460K,S477N,T478K,E484A,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN..S..KKPS....... 36 0 0 36 0 0 0 0 36 27 75% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-K...V.E...E.V....HT.ISN.PS..KRPS.I..... 35 0 2 10 17 0 0 6 35 21 60% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,T547I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D......E....G......DT..SNT..R.KKV....H... 35 0 1 1 24 0 0 9 35 32 91% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,K182E,V213G,Q218H,P251L,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,P1162L] Omicron_BA.4andBA.5
.I---S--FD...........G......DT..SN...R..KV........ 34 0 0 0 34 0 0 0 34 13 38% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,V83F,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,C1243F] Omicron_BA.4andBA.5
.I---S--.D-..........G......DT..SNT..R.KKV....H... 34 0 29 3 1 0 1 0 34 15 44% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S..AD-Q.....ES..E.V....HT.ISN.PS..KKPS....... 32 0 5 26 1 0 0 0 32 27 84% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,G184S,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KIPS....... 30 7 3 14 5 0 0 1 30 13 43% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478I,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL.N...VG....S.HT..SNT.SR.KKS........ 30 11 5 14 0 0 0 0 30 13 43% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,K182N,I210V,V213G,G257S,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,G446S,L452R,N460K,S477N,T478K,E484A,F486S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..A---.....E...E.V....HT.ISN.PS..KKPS....... 30 2 11 9 6 1 1 0 30 7 23% [T19I,L24-,P25-,P26-,A27S,V83A,P139Q,F140-,L141-,G142-,V143-,Y144-,Y145-,H146-,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S.AAD-Q.....E...E.V....HT.ISN.PS..KKPS....... 30 0 0 3 0 0 0 27 30 15 50% [T19I,L24-,P25-,P26-,A27S,V70A,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,C1247S]
.I---S..AD-Q.....E...EGV....HT.ISN.PS..KKPS....... 30 2 7 19 2 0 0 0 30 18 60% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,D215G,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..A.-Q...V.E...E.V....HT.ISN.PS..KRPS....... 29 0 2 0 27 0 0 0 29 23 79% [T19I,L24-,P25-,P26-,A27S,V83A,Y144-,H146Q,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD.-...V.E...E.V....HT.ISN.PS..KRPS.I..... 28 0 4 1 21 0 0 2 28 18 64% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y145X,H146-,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,T547I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D-..........G..G...DT..SNT..R.KKV........ 28 7 14 5 2 0 0 0 28 11 39% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,D253G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S..AD.-.....E...E.V....HT.ISN.PS..KKPSS...... 28 0 27 1 0 0 0 0 28 23 82% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y145X,H146-,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,I410V,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.IS..PS.LKKPS....... 28 0 11 8 5 0 4 0 28 20 71% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,N440K,V445P,G446S,F456L,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.I.N.PS..KKPS...H... 27 0 24 0 3 0 0 0 27 17 62% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HTTISN.PS..KKSS....... 27 1 19 2 5 0 0 0 27 9 33% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,K356T,L368I,S371F,S373P,S375F,T376A,R403K,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486S,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,D1259X]
.I---S..AD-Q.....E...E.V....HT..SN.PS..KKPS....... 27 0 6 3 18 0 0 0 27 4 14% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KKPS.K..... 27 0 2 18 7 0 0 0 27 20 74% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..ADQ-.....E...E.V....HT.ISN.PS..KKPS....... 26 0 13 8 4 0 1 0 26 4 15% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144Q,Y145-,H146-,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL.....VG....S.H.T.SN..S..KK.S....... 26 0 9 3 14 0 0 0 26 14 53% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,G257S,G339H,K356T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,N450D,N460K,S477N,T478K,E484A,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-K.....E...E.V....HT.IS..PS..KKPS....... 26 0 6 7 11 0 2 0 26 13 50% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....EV..E.V....HT.ISN.PS..KKPS....... 26 1 10 11 4 0 0 0 26 19 73% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,G184V,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D-........D.G......DT..SNT..R.KKV........ 26 0 18 4 4 0 0 0 26 5 19% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,N185D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,G946R,Q954H,N969K] Omicron_BA.4andBA.5
.I---S..AD-K.....E...E.V....HT.ISN.PS..KRPS....... 26 0 5 12 9 0 0 0 26 16 61% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KNPS....... 26 0 10 10 6 0 0 0 26 6 23% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478N,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-K.....EV..E..G...HT.ISN.PS..KKPSS...... 26 0 0 6 15 0 1 4 26 18 69% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,Q183E,G184V,V213E,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D-..........G..G...D...SNT..R.KKV........ 26 1 2 3 20 0 0 0 26 17 65% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,D253G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,I666V,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S..AD-Q.....E...E.V....H..ISN.PS..KKPS....... 26 0 9 0 0 0 17 0 26 12 46% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-K.....E..TE.V....HT.ISN.PS..KKPS....... 25 0 0 0 25 0 0 0 25 23 92% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,Q183E,Y200C,I210T,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q...Q.E...E.V....HT.ISN.PS..KKPS....... 25 0 3 15 7 0 0 0 25 11 44% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,E180Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E..G...HT.ISN.PS..KKPSS...S.. 25 0 0 0 25 0 0 0 25 15 60% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521S,D614G,P621S,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D.-.....E...E.V....HT.I.N.PS..KKPS....... 25 0 0 0 25 0 0 0 25 2 8% [T19I,L24-,P25-,P26-,A27S,P85X,F86X,N87X,D88X,G89X,V90X,G142D,Y145X,H146-,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,D405N,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I.---..AD-Q.....E...E.V....HT.ISN.PS..KKPS....... 24 1 6 11 5 0 1 0 24 15 62% [T19I,P25-,P26-,A27-,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q...V.E...E.V....HT.I.N.PS..KRPS....... 24 0 2 2 19 1 0 0 24 20 83% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E..G...HT.ISN.PS..KKSS.....I. 23 0 1 0 0 0 22 0 23 20 86% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486S,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,T883I,Q954H,N969K]
.I---S..AD-Q.....E...E..G...HT.ISN.PS..KKSS....... 23 0 5 5 0 0 12 1 23 9 39% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486S,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-K....RE...E.V....HT.ISN.PS..KKPS....... 23 0 1 22 0 0 0 0 23 17 73% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,K182R,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..K.......... 23 0 7 15 1 0 0 0 23 10 43% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..SD-Q.....E...E.V....HT.ISN.PS..KKPS....... 23 1 0 5 17 0 0 0 23 15 65% [T19I,L24-,P25-,P26-,A27S,V83S,G142D,Y144-,H146Q,Q183E,Y200C,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..---S..AD-K.....E...E.V....HT.ISN.PS..KKPS....... 23 0 21 0 2 0 0 0 23 18 78% [L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-K.....E...E.V...IHT.ISN.PS..KKPS....... 21 5 9 1 6 0 0 0 21 9 42% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,Q183E,V213E,G252V,T323I,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V.L..HT.ISN.PS..KRPS....... 21 0 0 21 0 0 0 0 21 19 90% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,S256L,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D-..........G......DT..SN...R..KV........ 21 0 3 1 17 0 0 0 21 6 28% [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,N679K,P681H,N764K,D796Y,Q954H,N969K,C1243F] Omicron_BA.4andBA.5
.I---S..AD-Q.....E...E.V...RHT.ISN.PS..KKPS....... 20 0 4 16 0 0 0 0 20 10 50% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,T323R,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KKLS....... 20 0 4 2 14 0 0 0 20 7 35% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484X,G485X,F486L,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E..-E..G...HT.ISN.PS..KKPSS...... 20 0 0 0 3 0 0 17 20 15 75% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,I210-,V213E,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-K.....E...E..G...HT.ISN.PS..KKPSS...... 19 0 5 7 6 0 0 1 19 11 57% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,Q183E,V213E,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D.Q.....E...E.V....HT.ISN.PS.LKKPS....... 19 0 0 0 0 0 19 0 19 6 31% [T19I,L24-,P25-,P26-,A27S,G142D,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,F456L,N460K,S477N,T478K,E484A,F486P,F490S,Q498X,P499X,T500X,N501X,G502X,V503X,G504X,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V...IHT.IS..PS..KKPS....... 19 0 17 1 1 0 0 0 19 17 89% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,T323I,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D-..........G......D...SNT..R.KKV....H... 19 0 1 1 17 0 0 0 19 18 94% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S...D..ERL......-....S.HT..SNT.SR.KKS........ 19 2 8 4 1 0 0 4 19 11 57% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,+209V,N211G,L212-,V213-,G257S,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,G446S,L452R,N460K,S477N,T478K,E484A,F486S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D-........D.G......DT..SNT..R.KKV....H... 19 2 16 0 1 0 0 0 19 12 63% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,N185D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S..AD-Q....-....E.V....HT.ISN.PS..KKPS....... 19 0 19 0 0 0 0 0 19 13 68% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,K182-,+183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D..N........G......DT..SNT..R.KKV........ 19 1 12 3 1 0 0 2 19 12 63% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,K147N,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S..AD-Q.........E.V....HT.ISN.PS..KKPS....... 18 0 4 2 6 1 5 0 18 9 50% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E.I.E..G...HT.ISN.PS..KRPSS...... 18 1 7 2 8 0 0 0 18 9 50% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,N185I,F186-,V213E,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..PD-Q.....E...E.V....HT.ISN.PS..KKPS....... 18 0 1 17 0 0 0 0 18 12 66% [T19I,L24-,P25-,P26-,A27S,V83P,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D..Q........G......D...SN..DR.KKV........ 18 0 0 0 18 0 0 0 18 9 50% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,K147Q,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446D,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S..AD-K.....E...EHV....HT.ISN.PS..KKPS....... 18 2 14 1 0 0 0 1 18 15 83% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,Q183E,V213E,D215H,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL....DVG....S.HT..SNT.SR.KKS......I. 18 0 0 7 1 0 0 10 18 17 94% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,N185D,I210V,V213G,G257S,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,G446S,L452R,N460K,S477N,T478K,E484A,F486S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,T883I,Q954H,N969K]
.I---S--.D...........G......DT..SNTA.R.KKV........ 18 9 3 6 0 0 0 0 18 10 55% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,Y248S,+248KW,+249DL,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,V445A,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S..AD-Q.....E...E.V....HT.ISNRPS..KKPS....... 17 0 13 1 0 3 0 0 17 7 41% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444R,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,D796Y,Q954H,N969K]
.I---S..AD-Q.....E..TE.V....HT.ISN.PS..KKPS....... 17 0 1 3 13 0 0 0 17 12 70% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,Y200C,I210T,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..---S..AD-Q...V.E...E.V....HT.ISN.PS..KRPS....... 17 0 5 0 12 0 0 0 17 6 35% [L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q...V.E...E.V....HT.IS..PS..KRPS.I..... 16 0 1 1 14 0 0 0 16 12 75% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,T547I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V..D.HT.ISN.PS..KKPS....... 16 0 8 6 1 0 0 1 16 4 25% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G257D,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HI.ISN.PS..KKPS....... 16 0 3 11 2 0 0 0 16 8 50% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346I,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q...V.E...E.V....HT.ISN.PS..KRPS....H.. 16 0 1 5 8 0 0 2 16 12 75% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,P621H,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL.....VE....S.HTT.SN..S..KK.S....... 16 0 0 0 16 0 0 0 16 7 43% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213E,G257S,G339H,R346T,K356T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,N460K,S477N,T478K,E484A,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,S929N,Q954H,N969K]
.I---S..AD-....V.E...E.V....HT.ISN.PS..KRPS....... 16 0 0 1 15 0 0 0 16 10 62% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL.....VG....S.HTT.S...S..KK.S....... 15 0 3 0 12 0 0 0 15 7 46% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,G257S,G339H,R346T,K356T,S371F,S373P,S375F,T376A,D405N,R408S,N440K,G446S,N460K,S477N,T478K,E484A,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--AD-Q...V.E...E.V....HT.ISN.PS..KRPS.I..... 15 1 0 0 14 0 0 0 15 12 80% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,V83A,G142D,Y144-,H146Q,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,T547I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PI..KKPS....... 15 1 5 9 0 0 0 0 15 5 33% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446I,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,A701V,N764K,D796Y,Q954H,N969K]
.I---S--.D..E........G......DT..SNT..R.KKV..K..... 15 0 0 0 15 0 0 0 15 13 86% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,K147E,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,V687I,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
FI---S..AD-Q.....E...E.V....HT.ISN.PS..KKPS...H... 15 0 6 2 6 0 0 1 15 12 80% [L5F,T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...EYV....HT.ISN.PS..KKPS....... 15 0 1 9 5 0 0 0 15 14 93% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,D215Y,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E..-...HT.ISN.PS..KKPS....... 15 0 2 13 0 0 0 0 15 12 80% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,+251V,D253-,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KK.S....... 15 0 1 8 6 0 0 0 15 6 40% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D..I........G......D...SNT..R.KKV........ 15 0 15 0 0 0 0 0 15 11 73% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,K147I,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S--.D-..........G...L..DT..SNT..R.KKV........ 15 2 6 0 7 0 0 0 15 8 53% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,V213G,S256L,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S..AD-K.....E...E.V....HT.ISN.PS..KKPS......R 14 0 10 3 1 0 0 0 14 11 78% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,K1045R]
.I---S..AD.-.....E...E..G...HT.ISN.PS..KKPSS...... 14 0 10 0 4 0 0 0 14 5 35% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y145X,H146-,Q183E,V213E,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.IS..PS..KRPS....... 14 0 1 9 4 0 0 0 14 9 64% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.IS..PS..KKPS...H... 14 0 8 1 5 0 0 0 14 9 64% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q...V.E...E.V....HT.ISN.PS..KRPS.....I. 14 0 2 6 5 1 0 0 14 6 42% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,E180V,Q183E,V213E,G252V,S255F,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,T883I,Q954H,N969K]
FI---S...D..ERL.....VG....S.HT..SN..S..KKPS....... 14 0 1 0 4 0 0 9 14 8 57% [L5F,T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,G257S,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,L858I,Q954H,N969K]
.I---S...D...........G....D.D...SNRA.M.K.......... 14 0 0 0 14 0 0 0 14 8 57% [T19I,L24-,P25-,P26-,A27S,G142D,M153T,N164K,V213G,H245N,G257D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444R,V445A,N450D,L452M,N460K,S477N,E484R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,A688V,N764K,D796Y,Q954H,N969K]
.I---S..AD-K.....E...E.V....HT.ISN.PS..KKPS....S.. 14 0 6 7 1 0 0 0 14 4 28% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,Q183E,V213E,L242P,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,P621S,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KRPST...... 14 0 0 14 0 0 0 0 14 13 92% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521T,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D-...S......G......DT..SNT..R.KKV........ 14 0 0 14 0 0 0 0 14 11 78% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,F157S,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S...D..ERL.....VG....S.HT...N..S..KKPS....... 14 0 3 0 11 0 0 0 14 3 21% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,Y170X,V171X,S172X,Q173X,P174X,F175X,I210V,V213G,G257S,G339H,R346T,S371F,S373P,T376X,D405N,K417N,N440K,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D-..........G......D...SN...R..KV........ 13 1 3 1 8 0 0 0 13 2 15% [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,N703S,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S..AD-Q.....E...D..G...HT.ISN.PS..KRPSS...... 13 0 1 2 0 0 0 10 13 9 69% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213D,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KRPS...H... 13 0 9 3 1 0 0 0 13 6 46% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,G1124V]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KKSP....... 13 0 3 2 7 0 0 1 13 9 69% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486S,F490P,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D...........G....D.D...SNR.SM.KKS........ 13 0 1 9 3 0 0 0 13 2 15% [T19I,L24-,P25-,P26-,A27S,G142D,M153T,N164K,V213G,H245N,G257D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444R,G446S,N450D,L452M,N460K,S477N,T478K,E484R,F486S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.ISN.PS..KEPS....... 13 0 1 8 4 0 0 0 13 7 53% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478E,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-K.....E...E.V....HT.ISN.PS..KKPS..I.... 13 0 0 13 0 0 0 0 13 10 76% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,T573I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
FI---S..AD-K.....E...E.V....HT.ISN.PS..KKPS....... 13 0 5 5 1 0 1 1 13 9 69% [L5F,T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D......E....G......DT..SNT..R.KKV........ 13 0 4 1 4 0 4 0 13 4 30% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,S112A,G142D,K182E,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S.FAD-Q.....E...E.V....HT.ISN.PS..KKPS...H... 13 0 11 1 1 0 0 0 13 9 69% [T19I,L24-,P25-,P26-,A27S,V70F,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,I312V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..---S..AD-Q.....E...E.V....HT.ISN.PS..KKPS...H... 13 1 12 0 0 0 0 0 13 3 23% [L24-,P25-,P26-,A27S,V83A,S98F,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E.D.E.V....HT.ISN.PS..KKPS....... 12 2 2 4 3 0 1 0 12 7 58% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,N185D,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD.-.....E...E.V....HTTISN.PS..KKPS....... 12 0 2 10 0 0 0 0 12 11 91% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y145P,H146-,Q183E,V213E,G252V,G339H,R346T,K356T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,T572I,D614G,P631S,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL.....VG....SKHT..SNT.SR.KKS........ 12 11 1 0 0 0 0 0 12 9 75% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,G257S,T323K,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,G446S,L452R,N460K,S477N,T478K,E484A,F486S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q....IE...E.V....HT.ISN.PS..KKPS....... 12 0 4 4 4 0 0 0 12 4 33% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,K182I,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL.....VG....-.HT..SNT.SR.KKS........ 12 1 5 2 1 0 0 3 12 4 33% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,+254P,G257-,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,G446S,L452R,N460K,S477N,T478K,E484A,F486S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL.....VG....S.H...SNT.SR.KK......... 12 0 0 0 12 0 0 0 12 8 66% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,G257S,G339H,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,G446S,L452R,N460K,S477N,T478K,E484A,Q498R,N501Y,Y505H,D574V,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q...V.E...E.V.L..HT.ISN.PS..KRPS....... 12 0 0 9 2 0 0 1 12 9 75% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,E180V,Q183E,V213E,G252V,S256L,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.V---S..AD-Q.....E...E.V....HT.ISN.PS..KKPS....... 12 1 4 6 1 0 0 0 12 3 25% [T19V,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V.P..HT.ISN.PS..KKPS....... 12 0 0 3 1 0 0 8 12 10 83% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,S256P,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.IS..PS..KKPS......R 12 0 12 0 0 0 0 0 12 8 66% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,K1045R]
.I---S--.D...........G......DT..SNT..R.KRV........ 12 0 1 2 8 1 0 0 12 4 33% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478R,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....H..IS..PS..KKPS.....I. 12 0 0 0 0 0 12 0 12 6 50% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,L368I,S371F,S373P,S375F,T376A,D405N,R408S,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,T883I,Q954H,N969K]
.I---S--.D...........G......D...SN...R..K......... 12 0 0 0 12 0 0 0 12 6 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,A570S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I......AD.Q...V.E...E.V....HT.ISN.PS..KRPS....... 12 0 0 0 12 0 0 0 12 11 91% [T19I,V83A,G142D,H146Q,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL....DVG....S.HTT.SN..S..KK.S....... 12 0 1 0 11 0 0 0 12 9 75% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,N185D,I210V,V213G,G257S,G339H,R346T,K356T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,N460K,S477N,T478K,E484A,F490S,S494P,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..---S..AD-Q.....E...E.V.L..HT.ISN.PS..KKPS....... 12 0 12 0 0 0 0 0 12 11 91% [L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,S256L,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,S494P,Q498R,N501Y,Y505H,D614G,N616D,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD.-.....E...EHV....HT.ISN.PS..KKPS....... 11 0 11 0 0 0 0 0 11 8 72% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y145X,H146-,Q183E,V213E,D215H,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E..G...HT.IS..PS..KKPSS...... 11 0 4 0 7 0 0 0 11 7 63% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,D253G,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,P521S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HTNISN.PS..KKPS....... 11 1 2 2 6 0 0 0 11 8 72% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,K356N,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.I...PS..KKPS....... 11 0 4 5 2 0 0 0 11 4 36% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q...V.E...E.V....HT.ISN.PS.LKRPS....... 11 0 3 7 1 0 0 0 11 9 81% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,F456L,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D...........G....D.D...SNR..M.KR......... 11 0 0 0 11 0 0 0 11 10 90% [T19I,L24-,P25-,P26-,A27S,G142D,M153T,N164K,V213G,H245N,G257D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444R,N450D,L452M,N460K,S477N,T478R,E484R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,S704L,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...G.V....HT.ISN.PS..KKPS....... 11 0 6 0 4 0 1 0 11 7 63% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213G,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q..S..E...E.V....HT.ISN.PS..KKPS....... 11 1 3 6 1 0 0 0 11 10 90% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,F157S,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
FI---S..AD-Q.....E...E.V....HT.ISN.PS.LKKPS....... 11 1 1 9 0 0 0 0 11 6 54% [L5F,T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,F456L,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D.LERL.....VE....S.HTT.SN..S..KK.S....... 11 0 0 0 11 0 0 0 11 11 100% [T19I,L24-,P25-,P26-,A27S,G75S,G142D,H146L,K147E,W152R,F157L,I210V,V213E,G257S,G339H,R346T,K356T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,N460K,S477N,T478K,E484A,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HT.VSN.PS..KKPS....... 11 1 6 4 0 0 0 0 11 6 54% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368V,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..............VG....S.HTT.SN..S..KK.S....... 11 0 0 0 11 0 0 0 11 3 27% [T19I,L24-,P25-,P26-,A27S,I210V,V213G,G257S,G339H,R346T,K356T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,N460K,S477N,T478K,E484A,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL.....VG....SAHT..SNT.SR.KKS........ 11 5 6 0 0 0 0 0 11 4 36% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,G257S,T323A,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,G446S,L452R,N460K,S477N,T478K,E484A,F486S,Q498R,N501Y,Y505H,E554K,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
..---S..AD-......E...E.V....HT.ISN.PS..KKPS....... 11 0 0 0 0 11 0 0 11 5 45% [L24-,P25-,P26-,A27S,V83A,G142D,Y144-,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL.....VG....-.HT..SNT.SR.KKP........ 11 0 0 0 0 0 0 11 11 8 72% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,+254P,G257-,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,G446S,L452R,N460K,S477N,T478K,E484A,F486P,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S.FAD-Q.....E...E.V....HT.ISN.PS..KKPS....... 11 0 2 4 5 0 0 0 11 8 72% [T19I,L24-,P25-,P26-,A27S,V70F,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-....V.E...E.V....HT.ISN.PS..KRPS.I..... 11 0 0 0 11 0 0 0 11 5 45% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,T547I,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D..ERL.....VG....S.HTT.SN..S..KK.S....... 11 0 0 0 11 0 0 0 11 5 45% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,K147E,W152R,F157L,I210V,V213G,G257S,G339H,R346T,K356T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,N460K,S477N,T478K,E484A,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q....NE...E.V....HT.ISN.PS..KKPS....... 11 0 1 10 0 0 0 0 11 5 45% [T19I,L24-,P25-,P26-,A27S,V83A,I128V,G142D,Y144-,H146Q,K182N,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....H..IS..PS.LKKPS....... 11 0 0 0 0 0 11 0 11 5 45% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,L368I,S371F,S373P,S375F,T376A,D405N,R408S,N440K,V445P,G446S,F456L,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D..E........G......D...SN...R..KV........ 11 0 0 0 11 0 0 0 11 7 63% [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,A570S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S..AD.-.....E...E.V...IHT.ISN.PS..KKPS....... 10 0 9 1 0 0 0 0 10 6 60% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y145X,H146-,Q183E,V213E,G252V,T323I,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-K.....E...E.V....HT.I.N.PS..KKPS....... 10 0 5 2 1 0 2 0 10 4 40% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146K,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V..S.HT.ISN.PS..KKPS....... 10 1 4 3 1 0 0 1 10 6 60% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G257S,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.....E...E.V....HK.ISN.PS..KKPS....... 10 0 9 0 1 0 0 0 10 4 40% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346K,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,I1169F]
.I---S..AD-Q..S..E...E.I....HT.ISN.PS..KRPS....... 10 0 0 10 0 0 0 0 10 5 50% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,F157S,Q183E,V213E,G252I,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D...........G....D.D...SNR..M.KK......... 10 0 0 1 9 0 0 0 10 5 50% [T19I,L24-,P25-,P26-,A27S,G142D,M153T,N164K,V213G,H245N,G257D,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444R,N450D,L452M,N460K,S477N,T478K,E484R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D...........G......DT..SN.A.R..KV........ 10 0 2 1 6 0 0 1 10 6 60% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445A,L452R,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,P561S,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K,C1243F] Omicron_BA.4andBA.5
.I---S..AD-Q.....E...E.V....HT.ISN.PSR.KKPS....... 10 0 1 4 5 0 0 0 10 7 70% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,L452R,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D-..........G......DT..SNT..R.KKV..K..... 10 0 0 10 0 0 0 0 10 6 60% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,Y144-,M153I,V213G,G339D,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
.I---S..AD-Q.....E...E.V....HT.ISN......KPS....... 10 0 1 9 0 0 0 0 10 4 40% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD.Q...V.E...E.V....HT.ISN.PS..KRPS....... 10 0 0 3 7 0 0 0 10 6 60% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,H146Q,E180V,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478R,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD-Q.L...E...E.V....HT.ISN.PS..KKPS....... 10 0 7 3 0 0 0 0 10 7 70% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,W152L,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S..AD--.....E...E.V....HT.ISN.PS..KKPS....... 10 0 8 1 0 1 0 0 10 5 50% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146-,Q183E,V213E,G252V,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL.....VGG...S.HT..SNT.SR..KS....H... 10 0 2 0 0 0 0 8 10 9 90% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,D215G,G257S,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,G446S,L452R,S477N,T478K,E484A,F486S,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S...D..ERL.....VG....SIHT..SNT.SR.KKS........ 10 0 10 0 0 0 0 0 10 8 80% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,G257S,T323I,G339H,R346T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,G446S,L452R,N460K,S477N,T478K,E484A,F486S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,L858I,Q954H,N969K,V1230A]
.I---S..AD-Q.....E...E.V....H..ISN.PS..KKPS.....I. 10 0 1 0 0 0 9 0 10 7 70% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,G252V,G339H,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,T883I,Q954H,N969K]
.I---S..AD-Q.....E...E..-...HT.ISN.PS..KKPS...H... 10 1 9 0 0 0 0 0 10 6 60% [T19I,L24-,P25-,P26-,A27S,V83A,G142D,Y144-,H146Q,Q183E,V213E,+251V,D253-,G339H,R346T,L368I,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,V445P,G446S,N460K,S477N,T478K,E484A,F486P,F490S,Q498R,N501Y,Y505H,Q613H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
FI---S--.D...........G......D...SN...R..KV........ 10 0 1 0 9 0 0 0 10 6 60% [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..ERL.....VG......HTT.SN..S..KK.S....... 10 0 0 0 10 0 0 0 10 5 50% [T19I,L24-,P25-,P26-,A27S,G142D,K147E,W152R,F157L,I210V,V213G,G339H,R346T,K356T,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,G446S,N460K,S477N,T478K,E484A,F490S,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K]
.I---S--.D.........D.G......D...SNT..R.KKV........ 10 0 0 10 0 0 0 0 10 8 80% [T19I,L24-,P25-,P26-,A27S,H69-,V70-,G142D,N185D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,K444T,L452R,N460K,S477N,T478K,E484A,F486V,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] Omicron_BA.4andBA.5
Download
last modified: Wed May 24 14:07 2023
GISAID data provided on this website is subject to GISAID's Terms and Conditions
Questions or comments? Contact us at seq-info@lanl.gov.
Questions or comments? Contact us at seq-info@lanl.gov.
