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Welcome to the Regeneron COVID-19 Dashboard

This dashboard contains aggregated information on SARS-CoV-2 (hCoV-19) genomes and associated patient metadata, gathered in partnership with the GISAID initiative.

The goal of the dashboard is to enable scientists to understand the evolution of this emerging coronavirus by monitoring and displaying pertinent information. For example, the dashboard displays the novel mutations in SARS-CoV-2 (hCoV-19) genomes across time and geographical location, which facilitates the identification of a mutation that may increase transmission or virulence.

In addition, there is de-identified patient demographic information such as country of origin, patient status, and age, which provides further insights into the populations most susceptible to the virus.

10,924,668

SARS-CoV-2 (hCoV-19) genomes

May 27, 2022

05:31 PM ET

Last data update

Top Lineages Per Country (Past 12 Weeks)

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Lineage WHO Label Country Percent Lineage Count Total Count
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Turkey 81% 1,902 2,335
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Republic of Serbia 81% 90 111
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Sweden 81% 8,631 10,657
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Luxembourg 79% 4,683 5,898
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Ireland 78% 5,927 7,596
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Belgium 77% 11,171 14,453
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron France 76% 35,444 46,348
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Switzerland 74% 5,914 7,977
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron United Kingdom 73% 237,876 328,087
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Estonia 72% 693 959
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Norway 72% 4,955 6,878
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Andorra 72% 41 57
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Germany 71% 92,611 131,344
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Denmark 70% 65,607 93,444
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Romania 70% 792 1,136
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Croatia 68% 2,305 3,386
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Russia 68% 38 56
UnassignedUnassigned Mutations
ProteinMutations
Spike (RBD)N501Y (59%)
Spike (non-RBD)D614G (88%), P681H (59%)
NA Austria 67% 16,306 24,307
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Slovakia 66% 5,118 7,798
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Netherlands 65% 7,891 12,151
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Italy 64% 7,594 11,956
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Greece 63% 652 1,036
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Kosovo 62% 35 56
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Portugal 61% 3,252 5,308
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Spain 60% 7,549 12,626
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Slovenia 59% 2,454 4,146
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Liechtenstein 56% 184 331
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Finland 54% 1,013 1,892
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Montenegro 51% 37 72
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Lithuania 51% 2,298 4,492
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Poland 46% 1,783 3,910
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Czechia 43% 3,056 7,028
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Czechia 41% 2,896 7,028
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Poland 38% 1,484 3,910
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Lithuania 34% 1,524 4,492
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Montenegro 29% 21 72
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Denmark 25% 23,611 93,444
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Slovenia 24% 998 4,146
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Finland 21% 390 1,892
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Slovakia 20% 1,570 7,798
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Russia 20% 11 56
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Estonia 20% 188 959
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Liechtenstein 19% 64 331
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Finland 18% 346 1,892
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Norway 17% 1,203 6,878
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Spain 16% 2,020 12,626
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Austria 16% 3,837 24,307
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Germany 14% 18,917 131,344
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Netherlands 14% 1,743 12,151
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Kosovo 14% 8 56
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Croatia 14% 477 3,386
BA.2.23BA.2.23 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Andorra 14% 8 57
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371L (82%), S373P (83%), S375F (83%), K417N (62%), N440K (63%), G446S (65%), S477N (85%), T478K (86%), E484A (85%), Q493R (84%), G496S (81%), Q498R (81%), N501Y (81%), Y505H (82%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (83%), L212I (83%), ins214EPE (74%), T547K, D614G, H655Y, N679K, P681H, N764K (85%), D796Y, N856K, Q954H, N969K, L981F
Omicron Kosovo 12% 7 56
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Montenegro 12% 9 72
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Sweden 12% 1,291 10,657
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Portugal 12% 617 5,308
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Romania 11% 123 1,136
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Croatia 10% 350 3,386
*Criteria: Above 10%, minimum of 50 samples per country.
Lineage WHO Label Country Percent Lineage Count Total Count
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Guadeloupe 75% 61 81
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Sint Maarten 68% 110 161
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Jamaica 68% 61 90
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Martinique 61% 149 245
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Guatemala 59% 39 66
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Panama 57% 41 72
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Saint Martin 56% 32 57
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Puerto Rico 52% 222 428
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Mexico 42% 725 1,710
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Canada 42% 16,601 39,761
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron United States 41% 92,629 228,650
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Saint Martin 37% 21 57
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Costa Rica 27% 209 773
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Puerto Rico 26% 111 428
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Costa Rica 26% 198 773
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Mexico 22% 384 1,710
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Martinique 22% 53 245
BA.2.12.1BA.2.12.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452Q, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron United States 20% 45,277 228,650
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Guadeloupe 20% 16 81
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Costa Rica 19% 145 773
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Canada 18% 7,249 39,761
BA.1.1.16BA.1.1.16 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L, S373P, S375F, K417N, N440K, G446S, S477N, T478K, E484A, Q493R, G496S, Q498R, N501Y, Y505H
Spike (non-RBD)A67V (85%), H69- (83%), V70- (83%), T95I (85%), G142D (85%), V143- (85%), Y144- (85%), Y145- (85%), N211- (79%), L212I (79%), ins214EPE (74%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Panama 18% 13 72
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Canada 18% 7,071 39,761
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Costa Rica 17% 133 773
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron United States 12% 28,525 228,650
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Guatemala 12% 8 66
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Sint Maarten 12% 19 161
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Mexico 11% 196 1,710
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Jamaica 11% 10 90
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Panama 11% 8 72
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371L (82%), S373P (83%), S375F (83%), K417N (62%), N440K (63%), G446S (65%), S477N (85%), T478K (86%), E484A (85%), Q493R (84%), G496S (81%), Q498R (81%), N501Y (81%), Y505H (82%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (83%), L212I (83%), ins214EPE (74%), T547K, D614G, H655Y, N679K, P681H, N764K (85%), D796Y, N856K, Q954H, N969K, L981F
Omicron Guatemala 11% 7 66
*Criteria: Above 10%, minimum of 50 samples per country.
Lineage WHO Label Country Percent Lineage Count Total Count
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Brunei 94% 74 79
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Maldives 90% 45 50
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Sri Lanka 89% 91 102
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Nepal 80% 45 56
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Pakistan 73% 107 146
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Iran 72% 61 85
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron India 72% 3,024 4,222
BA.2.2BA.2.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K, I1221T
Omicron Hong Kong 68% 1,025 1,503
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Israel 66% 15,028 22,703
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Philippines 61% 101 165
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Malaysia 61% 2,643 4,325
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Cambodia 54% 137 256
UnassignedUnassigned Mutations
ProteinMutations
Spike (RBD)N501Y (59%)
Spike (non-RBD)D614G (88%), P681H (59%)
NA South Korea 52% 5,384 10,321
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Singapore 50% 1,427 2,874
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Thailand 48% 1,438 2,995
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Indonesia 39% 635 1,628
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Vietnam 33% 355 1,078
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Indonesia 33% 532 1,628
BA.2.3.2BA.2.3.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (80%), S477N (85%), T478K (85%), E484A (85%), Q493R (85%), Q498R (85%), N501Y (85%), Y505H (85%)
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Vietnam 31% 330 1,078
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Cambodia 25% 63 256
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Vietnam 24% 258 1,078
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron South Korea 23% 2,421 10,321
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Philippines 22% 37 165
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Malaysia 21% 889 4,325
UnassignedUnassigned Mutations
ProteinMutations
Spike (RBD)N501Y (59%)
Spike (non-RBD)D614G (88%), P681H (59%)
NA Pakistan 21% 30 146
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Thailand 20% 609 2,995
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Japan 19% 2,227 11,636
BA.1.1.2BA.1.1.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L, S373P, S375F, K417N, N440K, G446S, S477N, T478K, E484A, Q493R, G496S, Q498R, N501Y, Y505H
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211-, L212I, ins214EPE, T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Japan 19% 2,170 11,636
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Hong Kong 17% 262 1,503
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Japan 16% 1,851 11,636
BA.2.10BA.2.10 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S (89%), K417N, N440K (80%), S477N (89%), T478K (90%), E484A (89%), Q493R (83%), Q498R (86%), N501Y (87%), Y505H (88%)
Spike (non-RBD)T19I, L24- (86%), P25- (86%), P26- (86%), A27S (87%), G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Cambodia 16% 40 256
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Singapore 16% 449 2,874
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Iran 14% 12 85
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron South Korea 13% 1,322 10,321
BA.2.10BA.2.10 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S (89%), K417N, N440K (80%), S477N (89%), T478K (90%), E484A (89%), Q493R (83%), Q498R (86%), N501Y (87%), Y505H (88%)
Spike (non-RBD)T19I, L24- (86%), P25- (86%), P26- (86%), A27S (87%), G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Thailand 11% 340 2,995
BA.2.10BA.2.10 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S (89%), K417N, N440K (80%), S477N (89%), T478K (90%), E484A (89%), Q493R (83%), Q498R (86%), N501Y (87%), Y505H (88%)
Spike (non-RBD)T19I, L24- (86%), P25- (86%), P26- (86%), A27S (87%), G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron India 11% 460 4,222
BA.2.10.1BA.2.10.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D (77%), V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, G798D, Q954H, N969K
Omicron Singapore 10% 300 2,874
*Criteria: Above 10%, minimum of 50 samples per country.
Lineage WHO Label Country Percent Lineage Count Total Count
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Guam 90% 45 50
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Northern Mariana Islands 89% 442 497
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Australia 59% 15,054 25,389
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron New Zealand 51% 1,833 3,610
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Solomon Islands 36% 66 185
BA.2.10BA.2.10 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S (89%), K417N, N440K (80%), S477N (89%), T478K (90%), E484A (89%), Q493R (83%), Q498R (86%), N501Y (87%), Y505H (88%)
Spike (non-RBD)T19I, L24- (86%), P25- (86%), P26- (86%), A27S (87%), G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron New Zealand 35% 1,249 3,610
BA.2.3.3BA.2.3.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Solomon Islands 31% 57 185
AY.127.3AY.127.3 (Delta) Mutations
ProteinMutations
Spike (RBD)G446R, L452R, T478K
Spike (non-RBD)T19R, T95I, G142D, E156G, F157-, R158-, Q613H (64%), D614G, P681R, D950N, L1063F
Delta Solomon Islands 29% 53 185
*Criteria: Above 10%, minimum of 50 samples per country.
Lineage WHO Label Country Percent Lineage Count Total Count
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Argentina 68% 93 136
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Ecuador 64% 119 185
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Bonaire 64% 104 163
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Peru 47% 406 862
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Chile 43% 1,120 2,606
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Colombia 41% 180 440
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Trinidad And Tobago 37% 80 217
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Curacao 36% 70 195
BA.2.30BA.2.30 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Curacao 34% 66 195
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Brazil 31% 1,300 4,181
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Chile 28% 740 2,606
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Colombia 28% 124 440
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Brazil 27% 1,141 4,181
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Trinidad And Tobago 26% 56 217
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Trinidad And Tobago 18% 40 217
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371L (82%), S373P (83%), S375F (83%), K417N (62%), N440K (63%), G446S (65%), S477N (85%), T478K (86%), E484A (85%), Q493R (84%), G496S (81%), Q498R (81%), N501Y (81%), Y505H (82%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (83%), L212I (83%), ins214EPE (74%), T547K, D614G, H655Y, N679K, P681H, N764K (85%), D796Y, N856K, Q954H, N969K, L981F
Omicron Peru 17% 148 862
BA.2.12BA.2.12 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S (88%), K417N (88%), S477N (60%), T478K (60%), E484A (60%), Q493R (60%), Q498R (60%), N501Y (60%), Y505H (60%)
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron Curacao 15% 30 195
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371L (82%), S373P (83%), S375F (83%), K417N (62%), N440K (63%), G446S (65%), S477N (85%), T478K (86%), E484A (85%), Q493R (84%), G496S (81%), Q498R (81%), N501Y (81%), Y505H (82%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (83%), L212I (83%), ins214EPE (74%), T547K, D614G, H655Y, N679K, P681H, N764K (85%), D796Y, N856K, Q954H, N969K, L981F
Omicron Brazil 14% 589 4,181
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Peru 14% 118 862
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371L (82%), S373P (83%), S375F (83%), K417N (62%), N440K (63%), G446S (65%), S477N (85%), T478K (86%), E484A (85%), Q493R (84%), G496S (81%), Q498R (81%), N501Y (81%), Y505H (82%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (83%), L212I (83%), ins214EPE (74%), T547K, D614G, H655Y, N679K, P681H, N764K (85%), D796Y, N856K, Q954H, N969K, L981F
Omicron Ecuador 13% 24 185
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371L (82%), S373P (83%), S375F (83%), K417N (62%), N440K (63%), G446S (65%), S477N (85%), T478K (86%), E484A (85%), Q493R (84%), G496S (81%), Q498R (81%), N501Y (81%), Y505H (82%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (83%), L212I (83%), ins214EPE (74%), T547K, D614G, H655Y, N679K, P681H, N764K (85%), D796Y, N856K, Q954H, N969K, L981F
Omicron Colombia 11% 49 440
BA.2.13BA.2.13 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452M, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, D936Y (53%), Q954H, N969K
Omicron Bonaire 10% 17 163
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Argentina 10% 14 136
*Criteria: Above 10%, minimum of 50 samples per country.
Lineage WHO Label Country Percent Lineage Count Total Count
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron France (Réunion Island) 84% 1,102 1,315
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Botswana 64% 57 89
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Mauritius 63% 145 231
UnassignedUnassigned Mutations
ProteinMutations
Spike (RBD)N501Y (59%)
Spike (non-RBD)D614G (88%), P681H (59%)
NA Senegal 47% 40 86
BA.4BA.4 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S (82%), K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H
Spike (non-RBD)V3G (51%), T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron South Africa 40% 1,689 4,216
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron South Africa 39% 1,665 4,216
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Senegal 26% 22 86
BA.2.23BA.2.23 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Botswana 17% 15 89
BA.2.10BA.2.10 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S (89%), K417N, N440K (80%), S477N (89%), T478K (90%), E484A (89%), Q493R (83%), Q498R (86%), N501Y (87%), Y505H (88%)
Spike (non-RBD)T19I, L24- (86%), P25- (86%), P26- (86%), A27S (87%), G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Mauritius 15% 34 231
BA.5BA.5 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron South Africa 13% 535 4,216
UnassignedUnassigned Mutations
ProteinMutations
Spike (RBD)N501Y (59%)
Spike (non-RBD)D614G (88%), P681H (59%)
NA Botswana 12% 11 89
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Mauritius 12% 27 231
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Senegal 12% 10 86
*Criteria: Above 10%, minimum of 50 samples per country.
Lineage WHO Label State Percent Lineage Count Total Count
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Rhode Island 56% 1,022 1,833
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Alaska 55% 413 746
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Texas 51% 4,058 7,958
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron New Mexico 47% 513 1,083
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron District of Columbia 47% 1,496 3,163
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Florida 47% 4,971 10,560
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Oklahoma 46% 41 89
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Nebraska 46% 584 1,268
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron New Jersey 45% 5,726 12,585
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Maryland 45% 2,176 4,791
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Virginia 45% 2,461 5,439
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Massachusetts 45% 8,623 19,309
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Washington 44% 5,242 11,934
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Delaware 44% 498 1,143
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Georgia 43% 1,109 2,552
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Illinois 43% 3,114 7,258
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Idaho 43% 174 408
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Wisconsin 42% 1,536 3,633
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Nevada 42% 836 1,978
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Tennessee 41% 445 1,078
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Arizona 41% 1,489 3,621
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron West Virginia 41% 288 704
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Missouri 40% 450 1,114
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Minnesota 40% 1,348 3,342
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Ohio 40% 1,135 2,817
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron California 40% 11,584 28,773
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Indiana 40% 693 1,733
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Pennsylvania 40% 2,914 7,343
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Wyoming 39% 40 102
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Hawaii 39% 1,001 2,562
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Michigan 39% 1,715 4,414
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Connecticut 39% 2,504 6,449
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron New Hampshire 39% 321 831
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Alabama 39% 62 161
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Oregon 38% 957 2,504
BA.2.12.1BA.2.12.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452Q, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron New York 38% 12,228 32,239
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Kentucky 38% 335 885
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Arkansas 38% 54 144
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron North Dakota 37% 338 909
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Louisiana 36% 448 1,244
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Kansas 35% 235 662
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Mississippi 35% 101 285
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Colorado 35% 3,221 9,186
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron South Carolina 35% 360 1,030
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Utah 34% 934 2,731
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron North Carolina 34% 2,815 8,305
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Maine 33% 432 1,315
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Iowa 32% 330 1,017
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, R346K, S371L (87%), S373P (88%), S375F (88%), K417N (70%), N440K (74%), G446S (75%), S477N, T478K, E484A, Q493R, G496S (89%), Q498R (88%), N501Y (89%), Y505H (89%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (87%), L212I (87%), ins214EPE (78%), T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F
Omicron Montana 32% 71 223
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Vermont 25% 782 3,100
*Criteria: Minimum of 20 samples per state.
Lineage WHO Label Country 2-Week Period Change Previous Support Current Support
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Liechtenstein 2022-04-04 59% -> 93% (+33%) 64 / 108 25 / 27
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Montenegro 2022-03-21 37% -> 61% (+24%) 10 / 27 27 / 44
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Slovenia 2022-03-21 44% -> 68% (+23%) 886 / 1,998 732 / 1,079
BA.4BA.4 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S (82%), K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H
Spike (non-RBD)V3G (51%), T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Netherlands 2022-05-16 2% -> 24% (+23%) 17 / 984 8 / 33
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Turkey 2022-03-21 70% -> 92% (+22%) 730 / 1,047 426 / 465
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Romania 2022-04-18 74% -> 96% (+21%) 148 / 199 45 / 47
BA.5BA.5 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Portugal 2022-05-02 12% -> 33% (+21%) 132 / 1,074 306 / 930
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Austria 2022-05-16 11% -> 30% (+19%) 417 / 3,827 159 / 529
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Croatia 2022-03-21 53% -> 71% (+18%) 513 / 967 703 / 990
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Italy 2022-03-21 46% -> 63% (+17%) 1,397 / 3,032 1,284 / 2,043
BA.5BA.5 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Switzerland 2022-05-16 3% -> 18% (+15%) 9 / 321 9 / 50
BA.2.12.1BA.2.12.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452Q, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron Ireland 2022-05-02 1% -> 14% (+13%) 5 / 445 42 / 296
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Spain 2022-03-21 49% -> 61% (+13%) 1,940 / 3,969 1,891 / 3,078
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Finland 2022-04-04 50% -> 62% (+12%) 236 / 471 341 / 546
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371L (82%), S373P (83%), S375F (83%), K417N (62%), N440K (63%), G446S (65%), S477N (85%), T478K (86%), E484A (85%), Q493R (84%), G496S (81%), Q498R (81%), N501Y (81%), Y505H (82%)
Spike (non-RBD)A67V, H69-, V70-, T95I, G142D, V143-, Y144-, Y145-, N211- (83%), L212I (83%), ins214EPE (74%), T547K, D614G, H655Y, N679K, P681H, N764K (85%), D796Y, N856K, Q954H, N969K, L981F
Omicron Greece 2022-04-04 2% -> 15% (+12%) 9 / 408 28 / 193
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Poland 2022-03-21 39% -> 51% (+12%) 713 / 1,836 577 / 1,141
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron France 2022-03-21 68% -> 80% (+11%) 8,528 / 12,457 11,408 / 14,319
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Republic of Serbia 2022-04-04 74% -> 84% (+10%) 26 / 35 64 / 76
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Czechia 2022-03-21 35% -> 44% (+9%) 666 / 1,920 834 / 1,892
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Belgium 2022-03-21 69% -> 79% (+9%) 2,258 / 3,259 2,658 / 3,384
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Estonia 2022-03-21 65% -> 75% (+9%) 239 / 365 247 / 331
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Luxembourg 2022-03-21 70% -> 78% (+8%) 956 / 1,362 1,050 / 1,338
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Slovakia 2022-03-21 58% -> 66% (+8%) 1,357 / 2,338 1,668 / 2,517
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Germany 2022-03-21 63% -> 71% (+8%) 25,866 / 40,954 20,413 / 28,718
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Sweden 2022-04-18 17% -> 22% (+6%) 288 / 1,729 184 / 830
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron United Kingdom 2022-03-21 70% -> 75% (+5%) 105,117 / 150,036 73,720 / 97,765
AY.4.5AY.4.5 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)T19R, T95I (84%), G142D (70%), E156G, F157-, R158-, D614G, P681R, D950N, D1259Y
Delta Lithuania 2022-03-21 0% -> 4% (+3%) 6 / 1,458 34 / 958
BA.5BA.5 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Denmark 2022-05-16 1% -> 2% (+2%) 39 / 7,284 18 / 782
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Norway 2022-04-18 1% -> 3% (+2%) 19 / 1,348 17 / 550
*Criteria: >= +5% or >= 2x fold change between 2 week periods with >= 20 samples.
Lineage WHO Label Country 2-Week Period Change Previous Support Current Support
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Sint Maarten 2022-03-21 27% -> 88% (+61%) 8 / 30 43 / 49
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Martinique 2022-03-21 40% -> 71% (+31%) 37 / 93 39 / 55
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Jamaica 2022-04-04 58% -> 88% (+30%) 22 / 38 38 / 43
BA.2.12.1BA.2.12.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452Q, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron Puerto Rico 2022-05-02 6% -> 33% (+27%) 8 / 136 7 / 21
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Costa Rica 2022-05-02 26% -> 49% (+23%) 56 / 216 20 / 41
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron United States 2022-03-21 23% -> 45% (+21%) 8,034 / 34,620 18,591 / 41,705
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Mexico 2022-04-04 17% -> 33% (+16%) 68 / 412 96 / 293
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Canada 2022-03-21 25% -> 40% (+15%) 2,050 / 8,062 4,433 / 11,052
*Criteria: >= +5% or >= 2x fold change between 2 week periods with >= 20 samples.
Lineage WHO Label Country 2-Week Period Change Previous Support Current Support
UnassignedUnassigned Mutations
ProteinMutations
Spike (RBD)N501Y (59%)
Spike (non-RBD)D614G (88%), P681H (59%)
NA South Korea 2022-05-02 62% -> 99% (+37%) 1,572 / 2,522 395 / 398
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Philippines 2022-05-02 22% -> 52% (+30%) 10 / 45 12 / 23
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Pakistan 2022-03-21 55% -> 83% (+28%) 28 / 51 19 / 23
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron India 2022-04-04 63% -> 85% (+22%) 667 / 1,061 675 / 792
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Hong Kong 2022-04-04 4% -> 26% (+22%) 18 / 421 53 / 204
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Japan 2022-04-18 22% -> 41% (+19%) 632 / 2,908 282 / 685
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Sri Lanka 2022-03-21 86% -> 100% (+14%) 68 / 79 21 / 21
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Cambodia 2022-04-18 21% -> 33% (+12%) 12 / 57 9 / 27
BA.2.3.2BA.2.3.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (80%), S477N (85%), T478K (85%), E484A (85%), Q493R (85%), Q498R (85%), N501Y (85%), Y505H (85%)
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Vietnam 2022-04-18 24% -> 35% (+12%) 48 / 204 23 / 65
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Malaysia 2022-04-04 61% -> 72% (+11%) 1,249 / 2,049 425 / 588
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Israel 2022-03-21 59% -> 69% (+10%) 3,374 / 5,713 3,585 / 5,165
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Thailand 2022-03-21 41% -> 51% (+10%) 321 / 789 478 / 946
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Singapore 2022-04-04 44% -> 51% (+7%) 249 / 567 274 / 534
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Indonesia 2022-03-21 36% -> 44% (+7%) 314 / 867 237 / 544
*Criteria: >= +5% or >= 2x fold change between 2 week periods with >= 20 samples.
Lineage WHO Label Country 2-Week Period Change Previous Support Current Support
BA.2.3.3BA.2.3.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Solomon Islands 2022-04-04 5% -> 55% (+50%) 1 / 20 11 / 20
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Australia 2022-03-21 40% -> 59% (+19%) 2,168 / 5,380 4,306 / 7,276
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron New Zealand 2022-03-21 27% -> 43% (+16%) 186 / 700 230 / 540
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Northern Mariana Islands 2022-03-21 2% -> 12% (+10%) 7 / 380 10 / 85
*Criteria: >= +5% or >= 2x fold change between 2 week periods with >= 20 samples.
Lineage WHO Label Country 2-Week Period Change Previous Support Current Support
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron French Guiana 2022-03-21 48% -> 91% (+44%) 10 / 21 21 / 23
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Brazil 2022-04-04 35% -> 63% (+28%) 257 / 736 382 / 603
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Trinidad And Tobago 2022-03-21 8% -> 35% (+27%) 6 / 72 12 / 34
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Peru 2022-04-18 31% -> 58% (+27%) 40 / 128 54 / 93
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Colombia 2022-03-21 22% -> 45% (+23%) 30 / 137 56 / 124
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Chile 2022-04-18 31% -> 43% (+12%) 212 / 691 203 / 474
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Bonaire 2022-04-04 63% -> 73% (+10%) 60 / 95 24 / 33
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Curacao 2022-03-21 29% -> 38% (+9%) 14 / 48 22 / 58
*Criteria: >= +5% or >= 2x fold change between 2 week periods with >= 20 samples.
Lineage WHO Label Country 2-Week Period Change Previous Support Current Support
BA.2.23BA.2.23 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Botswana 2022-04-18 8% -> 38% (+30%) 2 / 26 8 / 21
BA.4BA.4 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S (82%), K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H
Spike (non-RBD)V3G (51%), T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron South Africa 2022-04-18 38% -> 57% (+19%) 323 / 852 770 / 1,349
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron France (Réunion Island) 2022-03-21 73% -> 84% (+11%) 320 / 437 256 / 305
UnassignedUnassigned Mutations
ProteinMutations
Spike (RBD)N501Y (59%)
Spike (non-RBD)D614G (88%), P681H (59%)
NA Senegal 2022-03-21 22% -> 32% (+10%) 6 / 27 7 / 22
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Mauritius 2022-03-21 59% -> 65% (+6%) 55 / 94 85 / 131
*Criteria: >= +5% or >= 2x fold change between 2 week periods with >= 20 samples.
Lineage WHO Label State 2-Week Period Change Previous Support Current Support
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Idaho 2022-03-21 9% -> 52% (+43%) 7 / 75 44 / 84
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Mississippi 2022-03-21 8% -> 47% (+39%) 3 / 36 18 / 38
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Texas 2022-03-21 21% -> 57% (+36%) 304 / 1,432 1,039 / 1,807
BA.2.9BA.2.9 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (84%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Kansas 2022-05-16 7% -> 41% (+34%) 15 / 230 13 / 32
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Oregon 2022-03-21 13% -> 43% (+30%) 50 / 397 186 / 432
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron West Virginia 2022-04-04 21% -> 52% (+30%) 20 / 94 31 / 60
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Kentucky 2022-03-21 12% -> 41% (+30%) 20 / 169 51 / 123
BA.2.12.1BA.2.12.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452Q, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron Rhode Island 2022-05-02 19% -> 49% (+29%) 88 / 455 73 / 150
BA.2.12.1BA.2.12.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452Q, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron South Carolina 2022-04-18 17% -> 45% (+28%) 33 / 196 120 / 265
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Ohio 2022-03-21 15% -> 43% (+28%) 54 / 359 206 / 476
BA.2.12BA.2.12 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S (88%), K417N (88%), S477N (60%), T478K (60%), E484A (60%), Q493R (60%), Q498R (60%), N501Y (60%), Y505H (60%)
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron Maine 2022-04-18 0% -> 29% (+28%) 1 / 241 71 / 248
BA.2.12.1BA.2.12.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452Q, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron Iowa 2022-04-04 2% -> 30% (+28%) 3 / 139 51 / 171
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Nebraska 2022-04-04 37% -> 65% (+28%) 51 / 137 118 / 182
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Georgia 2022-03-21 24% -> 51% (+27%) 85 / 349 219 / 426
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Arkansas 2022-04-18 32% -> 59% (+27%) 10 / 31 16 / 27
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron North Dakota 2022-03-21 13% -> 40% (+26%) 18 / 136 46 / 116
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Connecticut 2022-03-21 23% -> 49% (+26%) 237 / 1,017 453 / 923
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron North Carolina 2022-03-21 12% -> 37% (+26%) 93 / 808 282 / 759
BA.2.12.1BA.2.12.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452Q, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron Arizona 2022-05-02 15% -> 39% (+25%) 105 / 722 341 / 870
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Minnesota 2022-04-04 25% -> 50% (+24%) 133 / 526 422 / 848
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Indiana 2022-03-21 19% -> 43% (+24%) 43 / 226 90 / 208
BA.2.12BA.2.12 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S (88%), K417N (88%), S477N (60%), T478K (60%), E484A (60%), Q493R (60%), Q498R (60%), N501Y (60%), Y505H (60%)
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron Vermont 2022-04-04 3% -> 27% (+24%) 20 / 772 238 / 889
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Virginia 2022-03-21 28% -> 52% (+24%) 173 / 619 517 / 1,000
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron California 2022-03-21 19% -> 42% (+24%) 1,055 / 5,645 2,603 / 6,161
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Washington 2022-03-21 19% -> 42% (+23%) 270 / 1,436 1,015 / 2,418
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Pennsylvania 2022-03-21 25% -> 48% (+23%) 296 / 1,162 626 / 1,303
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Colorado 2022-03-21 10% -> 32% (+22%) 208 / 2,053 641 / 1,988
BA.2.12.1BA.2.12.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452Q, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron Alabama 2022-05-02 24% -> 46% (+22%) 5 / 21 36 / 79
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Tennessee 2022-03-21 19% -> 40% (+21%) 28 / 147 53 / 131
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Florida 2022-03-21 30% -> 51% (+21%) 509 / 1,697 1,025 / 1,995
BA.2.12.1BA.2.12.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452Q, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron Delaware 2022-05-02 31% -> 52% (+21%) 112 / 364 112 / 215
BA.2.12.1BA.2.12.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452Q, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron New Hampshire 2022-04-04 8% -> 29% (+21%) 11 / 136 98 / 335
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Massachusetts 2022-03-21 32% -> 53% (+21%) 987 / 3,050 2,413 / 4,545
BA.2.12.1BA.2.12.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452Q, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron Maryland 2022-05-16 45% -> 65% (+21%) 492 / 1,103 45 / 69
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Utah 2022-03-21 12% -> 33% (+21%) 76 / 609 158 / 479
BA.2.12.1BA.2.12.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452Q, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron Louisiana 2022-04-18 8% -> 28% (+20%) 14 / 177 77 / 274
BA.2.12.1BA.2.12.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452Q, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron New Jersey 2022-05-02 33% -> 53% (+20%) 955 / 2,872 1,634 / 3,068
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Michigan 2022-03-21 19% -> 39% (+20%) 145 / 759 340 / 878
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Nevada 2022-03-21 25% -> 45% (+20%) 67 / 267 116 / 260
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Missouri 2022-03-21 14% -> 33% (+20%) 25 / 181 50 / 150
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Wisconsin 2022-03-21 24% -> 43% (+19%) 186 / 791 362 / 849
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron New Mexico 2022-04-04 18% -> 37% (+19%) 42 / 231 95 / 256
BA.2.12.1BA.2.12.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452Q, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron District of Columbia 2022-05-02 30% -> 48% (+19%) 239 / 809 441 / 912
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Hawaii 2022-03-21 20% -> 38% (+18%) 53 / 269 146 / 384
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Montana 2022-03-21 4% -> 21% (+17%) 2 / 57 8 / 39
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (85%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Illinois 2022-03-21 26% -> 43% (+16%) 317 / 1,203 712 / 1,674
BA.2.3BA.2.3 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K (88%), S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K
Omicron Alaska 2022-03-21 51% -> 66% (+15%) 154 / 301 150 / 227
BA.2.12.1BA.2.12.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452Q, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H
Spike (non-RBD)T19I, L24-, P25-, P26-, A27S, G142D, V213G, D614G, H655Y, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K
Omicron New York 2022-04-18 33% -> 46% (+13%) 2,635 / 8,058 3,436 / 7,470
*Criteria: >= +5% or >= 2x fold change between 2-week periods with >= 20 samples.

Data Timeline

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Dashboard Timeline

January 07, 2022
04:30PM

Top/emerging variant graphs updated

Added overlays and country-specific information to variant graphs
November 27, 2021
01:30PM

WHO Labels Updated

Added Omicron WHO variant
November 18, 2021
04:30PM

Dashboard UI/graphs updated

Added WHO labels to lineages
April 16, 2021
08:50PM

Dashboard UI/graphs updated

Added emerging lineages tracking and top lineages tracking per US state to home page
April 16, 2021
08:00PM

Dashboard backend pipeline overhauled

Overhauled backend pipeline to automatically download and QC data from GISAID daily
April 05, 2021
03:30PM

Dashboard UI/graphs updated

Added top and emerging lineage maps and graphs. Overhauled home page
March 23, 2021
06:00PM

Dashboard performance overhauled

Added caching and refactored all graphs for performance before public release
November 13, 2020
04:00PM

Dashboard UI/graphs updated

Broad-scale update across the entire dashboard to prepare for its launch onto the world wide web!
June 15, 2020
12:00AM

Dashboard graphs upgraded

Migrated dashboard graphs from Plotly to ECharts
June 04, 2020
08:06PM

Dashboard data source changed

Upgraded dashboard to use a database vs flat files. 3x reduction in load time
June 02, 2020
12:18PM

Dashboard UI upgraded

Overhauled dashboard user interface to use bs4dash
May 26, 2020
12:00AM

Variant tracking expanded

Began tracking variants in genes ORF1a and ORF1b
May 11, 2020
12:00AM

Variant tracking expanded

Began tracking variants in genes E, M, N, ORF3a, ORF7a, ORF8, and ORF10
April 27, 2020
12:00AM

Phylogenetic analysis added

Added tab containing viral genome evolutionary relationships
April 03, 2020
12:00AM

Automated QC pipeline created

Cleans up metadata fields such as age, collection date, gender, etc
April 02, 2020
10:36AM

First version of dashboard created

Created first version with shinydashboard. Data is ingested from flat files
March 31, 2020
12:00AM

Patient metadata tracking started

Began downloading patient metadata for all genomes
January 10, 2020
12:00AM

First data downloaded

Began downloading genomes from GISAID and subsequent variant calling
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