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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.

7,481,449

SARS-CoV-2 (hCoV-19) genomes

January 28, 2022

10:48 AM ET

Last data update

Top Lineages Per Country (Past 12 Weeks)

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Lineage WHO Label Country Percent Lineage Count Total Count
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Russia 70% 673 963
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Ukraine 57% 45 79
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Austria 56% 1,409 2,512
AY.4AY.4 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (76%), P681R, R158-, T19R, T95I (87%)
Delta Gibraltar 55% 489 886
AY.4.5AY.4.5 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, D1259Y, E156G, F157-, G142D (69%), P681R, R158-, T19R, T95I (84%)
Delta Lithuania 53% 2,701 5,101
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Croatia 42% 2,956 7,067
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron United Kingdom 41% 220,322 539,649
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Slovakia 38% 1,344 3,554
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Greece 36% 636 1,777
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Bosnia and Herzegovina 35% 217 619
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Luxembourg 34% 1,758 5,236
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Ireland 33% 2,014 6,139
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Liechtenstein 32% 139 438
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Romania 31% 323 1,030
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Estonia 31% 295 942
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Portugal 31% 1,393 4,466
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Moldova 31% 22 72
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Spain 30% 4,864 15,995
AY.4AY.4 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (76%), P681R, R158-, T19R, T95I (87%)
Delta Ireland 30% 1,825 6,139
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Slovenia 29% 2,426 8,387
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Netherlands 29% 4,674 16,304
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Italy 27% 4,626 16,955
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Norway 27% 1,657 6,207
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Belgium 26% 3,626 13,817
AY.121AY.121 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (60%), P681R, R158-, T19R, T95I (86%)
Delta Turkey 26% 2,632 10,034
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Finland 26% 722 2,757
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Malta 26% 104 401
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Denmark 25% 26,308 104,627
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Belgium 25% 3,392 13,817
AY.4AY.4 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (76%), P681R, R158-, T19R, T95I (87%)
Delta United Kingdom 23% 124,303 539,649
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Turkey 22% 2,255 10,034
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Spain 22% 3,594 15,995
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta France 22% 10,052 45,365
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Luxembourg 22% 1,128 5,236
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Cyprus 21% 11 52
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Bosnia and Herzegovina 21% 129 619
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Czechia 20% 1,529 7,604
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Romania 20% 206 1,030
AY.4AY.4 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (76%), P681R, R158-, T19R, T95I (87%)
Delta Czechia 20% 1,498 7,604
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Montenegro 20% 35 178
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Moldova 19% 14 72
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Germany 19% 17,633 92,546
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Switzerland 19% 4,879 25,626
AY.4AY.4 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (76%), P681R, R158-, T19R, T95I (87%)
Delta Malta 19% 76 401
AY.4AY.4 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (76%), P681R, R158-, T19R, T95I (87%)
Delta Poland 18% 3,196 17,648
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Moldova 18% 13 72
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Poland 18% 3,113 17,648
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron France 17% 7,833 45,365
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Netherlands 17% 2,804 16,304
AY.127AY.127 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N (85%), E156G (84%), F157- (84%), G142D (68%), P681R, R158- (84%), T19R, T95I (80%)
Delta Norway 17% 1,051 6,207
AY.127AY.127 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N (85%), E156G (84%), F157- (84%), G142D (68%), P681R, R158- (84%), T19R, T95I (80%)
Delta Finland 16% 453 2,757
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Bulgaria 16% 269 1,641
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Sweden 16% 1,951 12,164
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)D405N, E484A, G339D, K417N, N440K (85%), N501Y, Q493R, Q498R, R408S, S371F, S373P, S375F, S477N, T376A, T478K, Y505H
Spike (non-RBD)A27S (89%), D614G, D796Y, G142D (90%), H655Y, L24- (89%), N679K, N764K, N969K, P25- (89%), P26- (89%), P681H, Q954H, T19I, V213G
Omicron Denmark 16% 16,758 104,627
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Croatia 16% 1,119 7,067
AY.126AY.126 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (59%), I850L, P681R, R158-, T19R, T95I (82%)
Delta Turkey 15% 1,533 10,034
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Montenegro 15% 27 178
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Czechia 15% 1,145 7,604
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Greece 15% 266 1,777
AY.9.2AY.9.2 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)A222V (81%), D614G, D950N, E156G, F157- (88%), G142D (67%), P681R, R158-, T19R
Delta Bulgaria 15% 245 1,641
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Greece 15% 263 1,777
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Italy 15% 2,488 16,955
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Switzerland 14% 3,694 25,626
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Russia 14% 133 963
AY.4AY.4 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (76%), P681R, R158-, T19R, T95I (87%)
Delta Romania 14% 142 1,030
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Finland 13% 369 2,757
AY.4AY.4 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (76%), P681R, R158-, T19R, T95I (87%)
Delta Norway 13% 826 6,207
AY.4AY.4 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (76%), P681R, R158-, T19R, T95I (87%)
Delta Bulgaria 13% 218 1,641
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Malta 13% 53 401
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Gibraltar 13% 117 886
AY.4AY.4 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (76%), P681R, R158-, T19R, T95I (87%)
Delta Slovakia 13% 467 3,554
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Germany 13% 12,126 92,546
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Sweden 13% 1,570 12,164
AY.126AY.126 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (59%), I850L, P681R, R158-, T19R, T95I (82%)
Delta Ukraine 13% 10 79
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Liechtenstein 13% 55 438
AY.4.2.3AY.4.2.3 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)A222V (83%), D614G, D950N (89%), E156G, F157-, G142D (56%), P681R, R158-, T19R, T95I (87%), Y145H (80%)
Delta Moldova 12% 9 72
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Netherlands 12% 2,022 16,304
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta France 12% 5,516 45,365
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Sweden 12% 1,473 12,164
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Germany 12% 11,204 92,546
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Czechia 12% 920 7,604
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Slovakia 12% 423 3,554
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Belgium 12% 1,643 13,817
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Slovenia 12% 991 8,387
AY.110AY.110 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (71%), P681R, R158-, T19R, T95I (87%)
Delta Bulgaria 12% 192 1,641
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Lithuania 12% 595 5,101
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Austria 12% 290 2,512
AY.4AY.4 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (76%), P681R, R158-, T19R, T95I (87%)
Delta Lithuania 11% 575 5,101
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Slovenia 11% 925 8,387
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Finland 11% 297 2,757
AY.4AY.4 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (76%), P681R, R158-, T19R, T95I (87%)
Delta Sweden 11% 1,306 12,164
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Estonia 11% 100 942
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Switzerland 11% 2,706 25,626
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Poland 11% 1,863 17,648
AY.4AY.4 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (76%), P681R, R158-, T19R, T95I (87%)
Delta Denmark 10% 10,550 104,627
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Poland 10% 1,776 17,648
AY.43.4AY.43.4 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, P681R, R158-, T19R
Delta Liechtenstein 10% 44 438
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron France 10% 4,537 45,365
*Criteria: Above 10%, minimum of 50 samples per country.
Lineage WHO Label Country Percent Lineage Count Total Count
AY.34.2AY.34.2 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (76%), P681R, Q677H, R158-, T19R, T95I, T859I
Delta France (Martinique) 82% 65 79
AY.34.2AY.34.2 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (76%), P681R, Q677H, R158-, T19R, T95I, T859I
Delta Martinique 77% 62 81
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Puerto Rico 67% 861 1,278
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Guatemala 51% 44 87
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Saint Martin 49% 31 63
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Sint Maarten 45% 131 293
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Saint Vincent And The Grenadines 41% 29 71
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Dominican Republic 34% 49 145
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Costa Rica 31% 211 673
AY.25.1AY.25.1 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (78%), P681R, R158-, T19R
Delta Canada 30% 10,936 37,002
AY.119AY.119 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (67%), P681R, R158-, T19R, T95I (83%)
Delta British Virgin Islands 29% 19 65
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Canada 28% 10,430 37,002
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Sint Maarten 28% 82 293
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Mexico 25% 1,715 6,985
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Mexico 24% 1,700 6,985
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron United States 24% 121,301 502,398
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron British Virgin Islands 23% 15 65
AY.119AY.119 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (67%), P681R, R158-, T19R, T95I (83%)
Delta Dominican Republic 23% 33 145
AY.5AY.5 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (68%), P681R, R158-, T19R
Delta Saint Vincent And The Grenadines 23% 16 71
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Guatemala 21% 18 87
AY.113AY.113 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (65%), P681R, R158-, T19R, T95I (83%)
Delta Costa Rica 21% 139 673
AY.4AY.4 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (76%), P681R, R158-, T19R, T95I (87%)
Delta Saint Martin 21% 13 63
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Puerto Rico 21% 262 1,278
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron United States 20% 100,076 502,398
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron British Virgin Islands 18% 12 65
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Costa Rica 17% 116 673
AY.20AY.20 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, P681R, R158-, T19R, T95I (76%), V1104L
Delta Mexico 15% 1,063 6,985
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Canada 15% 5,606 37,002
AY.113AY.113 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (65%), P681R, R158-, T19R, T95I (83%)
Delta Guatemala 15% 13 87
AY.103AY.103 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (68%), P681R, R158-, T19R
Delta United States 15% 73,150 502,398
*Criteria: Above 10%, minimum of 50 samples per country.
Lineage WHO Label Country Percent Lineage Count Total Count
AY.24AY.24 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)A222V, D614G, D950N, E156G, F157-, G142D (68%), P681R, R158-, T19R
Delta Brunei 87% 278 318
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)D405N, E484A, G339D, K417N, N440K (85%), N501Y, Q493R, Q498R, R408S, S371F, S373P, S375F, S477N, T376A, T478K, Y505H
Spike (non-RBD)A27S (89%), D614G, D796Y, G142D (90%), H655Y, L24- (89%), N679K, N764K, N969K, P25- (89%), P26- (89%), P681H, Q954H, T19I, V213G
Omicron Philippines 71% 67 95
AY.57AY.57 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R (86%), T478K (87%)
Spike (non-RBD)A222V (76%), D614G, D950N, E156G (80%), F157- (81%), G142D (66%), P681R, R158- (80%), T19R
Delta Vietnam 65% 231 357
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Japan 47% 1,352 2,848
AY.69AY.69 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)A222V, D614G, D950N (86%), E156G, F157-, P681R, R158-, T19R
Delta South Korea 46% 2,720 5,872
AY.85AY.85 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (88%), F157- (88%), P681R, R158- (88%), T19R, T95I (79%)
Delta Thailand 44% 1,501 3,385
AY.131AY.131 (Delta) Mutations
ProteinMutations
Spike (RBD)G446V (61%), L452R, N501T (70%), T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, P681R, R158-, T19R, T95I (69%)
Delta Bangladesh 43% 200 462
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta South Korea 42% 2,453 5,872
AY.30AY.30 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (84%), F157- (85%), P681R, R158- (85%), T19R
Delta Cambodia 37% 219 586
AY.95AY.95 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N (62%), L244S (86%), P681R, T19R, T572I
Delta Maldives 36% 124 346
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Israel 35% 4,478 12,704
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Pakistan 33% 34 102
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Indonesia 32% 955 2,939
AY.85AY.85 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (88%), F157- (88%), P681R, R158- (88%), T19R, T95I (79%)
Delta Cambodia 31% 184 586
AY.33AY.33 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (59%), P681R, Q613H (52%), R158-, T19R, T29A, T250I
Delta Iraq 31% 25 81
AY.104AY.104 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (82%), P681R, R158-, T19R, T95I (85%), T572I
Delta Sri Lanka 30% 250 844
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Malaysia 29% 436 1,521
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Indonesia 27% 807 2,939
B.1.617.2B.1.617.2 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (82%), F157- (83%), G142D (66%), P681R, R158- (82%), T19R
Delta Qatar 26% 91 344
AY.127AY.127 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N (85%), E156G (84%), F157- (84%), G142D (68%), P681R, R158- (84%), T19R, T95I (80%)
Delta Hong Kong 25% 55 221
B.1.617.2B.1.617.2 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (82%), F157- (83%), G142D (66%), P681R, R158- (82%), T19R
Delta Nepal 25% 51 208
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Japan 25% 698 2,848
AY.23AY.23 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (66%), P681R, R158-, T19R, V1264L
Delta Singapore 24% 625 2,644
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)D405N, E484A, G339D, K417N, N440K (85%), N501Y, Q493R, Q498R, R408S, S371F, S373P, S375F, S477N, T376A, T478K, Y505H
Spike (non-RBD)A27S (89%), D614G, D796Y, G142D (90%), H655Y, L24- (89%), N679K, N764K, N969K, P25- (89%), P26- (89%), P681H, Q954H, T19I, V213G
Omicron Nepal 23% 48 208
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Hong Kong 23% 50 221
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Georgia 23% 128 568
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Thailand 22% 747 3,385
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Georgia 22% 123 568
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Jordan 21% 22 104
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Singapore 20% 539 2,644
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Singapore 20% 538 2,644
AY.106AY.106 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N (88%), E156G (84%), F157- (84%), P681R, R158- (84%), S255F (61%), T19R, T95I (56%)
Delta Jordan 20% 21 104
AY.127AY.127 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N (85%), E156G (84%), F157- (84%), G142D (68%), P681R, R158- (84%), T19R, T95I (80%)
Delta Qatar 20% 69 344
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Hong Kong 19% 43 221
AY.121AY.121 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (60%), P681R, R158-, T19R, T95I (86%)
Delta Georgia 19% 106 568
AY.23AY.23 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (66%), P681R, R158-, T19R, V1264L
Delta Malaysia 19% 283 1,521
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Maldives 18% 63 346
AY.79AY.79 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (71%), P681R, R158-, T19R
Delta Malaysia 18% 270 1,521
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Pakistan 18% 18 102
AY.23.1AY.23.1 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D, L1234I, P681R, R158-, T19R, V1264L
Delta Singapore 17% 462 2,644
AY.29AY.29 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D, P681R, R158-, T19R, T95I
Delta Japan 17% 496 2,848
AY.127AY.127 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N (85%), E156G (84%), F157- (84%), G142D (68%), P681R, R158- (84%), T19R, T95I (80%)
Delta Pakistan 17% 17 102
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Georgia 17% 94 568
AY.59AY.59 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)A222V (83%), D614G, D950N, E156G (89%), F157- (90%), G142D (63%), P681R, R158- (89%), T19R
Delta Malaysia 16% 245 1,521
AY.112AY.112 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N (81%), E156G (61%), F157- (61%), P681R, R158- (61%), T19R, T95I (79%)
Delta Maldives 16% 55 346
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Sri Lanka 16% 133 844
AY.28AY.28 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)A222V (88%), A701S (81%), A1078S (85%), D614G, D950N, E156G, F157-, G142D, P681R, R158-, T19R
Delta Sri Lanka 15% 130 844
B.1.617.2B.1.617.2 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (82%), F157- (83%), G142D (66%), P681R, R158- (82%), T19R
Delta India 15% 1,509 9,918
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Sri Lanka 15% 125 844
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Philippines 15% 14 95
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron India 15% 1,460 9,918
B.1.617.2B.1.617.2 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (82%), F157- (83%), G142D (66%), P681R, R158- (82%), T19R
Delta Bangladesh 14% 66 462
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Cambodia 14% 82 586
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)D405N, E484A, G339D, K417N, N440K (85%), N501Y, Q493R, Q498R, R408S, S371F, S373P, S375F, S477N, T376A, T478K, Y505H
Spike (non-RBD)A27S (89%), D614G, D796Y, G142D (90%), H655Y, L24- (89%), N679K, N764K, N969K, P25- (89%), P26- (89%), P681H, Q954H, T19I, V213G
Omicron India 14% 1,382 9,918
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Israel 13% 1,694 12,704
B.1.617.2B.1.617.2 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (82%), F157- (83%), G142D (66%), P681R, R158- (82%), T19R
Delta Iraq 12% 10 81
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Iraq 12% 10 81
AY.39AY.39 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (86%), F157- (86%), P681R, R158- (86%), T19R, T95I (67%)
Delta Nepal 12% 25 208
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Thailand 12% 406 3,385
ANA NA Pakistan 12% 12 102
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Vietnam 12% 42 357
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)D405N, E484A, G339D, K417N, N440K (85%), N501Y, Q493R, Q498R, R408S, S371F, S373P, S375F, S477N, T376A, T478K, Y505H
Spike (non-RBD)A27S (89%), D614G, D796Y, G142D (90%), H655Y, L24- (89%), N679K, N764K, N969K, P25- (89%), P26- (89%), P681H, Q954H, T19I, V213G
Omicron Qatar 12% 40 344
AY.112AY.112 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N (81%), E156G (61%), F157- (61%), P681R, R158- (61%), T19R, T95I (79%)
Delta India 11% 1,136 9,918
AY.127AY.127 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N (85%), E156G (84%), F157- (84%), G142D (68%), P681R, R158- (84%), T19R, T95I (80%)
Delta Bangladesh 11% 52 462
B.1.617.2B.1.617.2 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (82%), F157- (83%), G142D (66%), P681R, R158- (82%), T19R
Delta Sri Lanka 11% 90 844
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Cambodia 11% 62 586
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Philippines 11% 10 95
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)D405N, E484A, G339D, K417N, N440K (85%), N501Y, Q493R, Q498R, R408S, S371F, S373P, S375F, S477N, T376A, T478K, Y505H
Spike (non-RBD)A27S (89%), D614G, D796Y, G142D (90%), H655Y, L24- (89%), N679K, N764K, N969K, P25- (89%), P26- (89%), P681H, Q954H, T19I, V213G
Omicron Hong Kong 10% 23 221
AY.127AY.127 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N (85%), E156G (84%), F157- (84%), G142D (68%), P681R, R158- (84%), T19R, T95I (80%)
Delta India 10% 1,022 9,918
*Criteria: Above 10%, minimum of 50 samples per country.
Lineage WHO Label Country Percent Lineage Count Total Count
AY.39.1.1AY.39.1.1 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D, P681R, R158-, T19R, T95I
Delta New Zealand 71% 1,328 1,873
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Australia 47% 7,495 15,832
AY.39.1AY.39.1 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (59%), P681R, R158-, T19R, T95I (72%)
Delta Australia 29% 4,556 15,832
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron New Zealand 13% 247 1,873
AY.39.1.2AY.39.1.2 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (90%), F157- (90%), P681R, R158- (90%), T19R, T95I (50%)
Delta Australia 11% 1,814 15,832
*Criteria: Above 10%, minimum of 50 samples per country.
Lineage WHO Label Country Percent Lineage Count Total Count
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Suriname 79% 65 82
AY.25.1AY.25.1 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (78%), P681R, R158-, T19R
Delta Trinidad And Tobago 66% 209 315
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron French Guiana 55% 203 366
AY.42.1AY.42.1 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D, L938F, P681R, R158-, T19R, T95I, T719I
Delta Bonaire 44% 170 387
AY.99.2AY.99.2 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N (88%), E156G, F157-, P681R, R158-, T19R
Delta Brazil 35% 2,649 7,616
AY.25AY.25 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (64%), P681R, R158-, S112L (51%), T19R
Delta Argentina 34% 914 2,688
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta French Guiana 30% 110 366
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Curacao 29% 50 170
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Colombia 27% 401 1,473
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Chile 27% 902 3,331
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Bonaire 25% 96 387
AY.121AY.121 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (60%), P681R, R158-, T19R, T95I (86%)
Delta Aruba 22% 50 231
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Argentina 21% 576 2,688
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Ecuador 21% 98 461
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Ecuador 21% 95 461
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Brazil 21% 1,564 7,616
AY.43.3AY.43.3 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N (64%), E156G, F157-, G142D (55%), P681R, R158-, T19R
Delta Chile 20% 662 3,331
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Chile 20% 660 3,331
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Curacao 17% 29 170
AY.100AY.100 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (64%), P681R, R158-, T19R, T95I (81%)
Delta Ecuador 17% 77 461
AY.39.2AY.39.2 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, K1073N, P681R, R158-, T19R, T95I (85%)
Delta Peru 16% 432 2,652
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Aruba 16% 37 231
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Colombia 16% 232 1,473
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Ecuador 16% 72 461
AY.25.1AY.25.1 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (78%), P681R, R158-, T19R
Delta Colombia 15% 217 1,473
AY.25.1AY.25.1 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (78%), P681R, R158-, T19R
Delta Aruba 14% 33 231
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Peru 14% 372 2,652
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron French Guiana 14% 50 366
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Curacao 14% 23 170
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Bonaire 13% 51 387
AY.39AY.39 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (86%), F157- (86%), P681R, R158- (86%), T19R, T95I (67%)
Delta Trinidad And Tobago 12% 37 315
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Colombia 12% 173 1,473
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Peru 11% 300 2,652
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Suriname 11% 9 82
*Criteria: Above 10%, minimum of 50 samples per country.
Lineage WHO Label Country Percent Lineage Count Total Count
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Malawi 99% 90 91
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Zimbabwe 98% 204 208
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Seychelles 97% 153 157
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron South Africa 86% 3,373 3,942
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Botswana 72% 880 1,228
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Senegal 66% 44 67
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Kenya 64% 377 590
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Ghana 54% 52 96
AY.124.1AY.124.1 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (89%), F157-, P681R, R158-, T19R, T95I (83%)
Delta Mauritius 51% 78 153
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Gambia 50% 26 52
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Morocco 46% 26 57
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Nigeria 41% 87 213
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta France (Réunion Island) 38% 223 581
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Nigeria 33% 70 213
AY.46AY.46 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (87%), F157- (88%), G142D (70%), P681R, R158- (87%), T19R
Delta Uganda 27% 24 88
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Gambia 27% 14 52
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Uganda 22% 19 88
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Egypt 21% 52 244
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Kenya 21% 125 590
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Senegal 21% 14 67
AY.33.1AY.33.1 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, E654K (68%), F157-, H49Y (68%), P681R, Q613H (73%), R158-, T19R, T29A (74%), T250I (73%), T299I (73%)
Delta France (Réunion Island) 20% 114 581
AY.43AY.43 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (62%), P681R, R158-, T19R
Delta Gambia 19% 10 52
AY.36AY.36 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (60%), P681R, R158-, T19R, T95I (83%), V1104L
Delta Nigeria 18% 38 213
AY.33AY.33 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (59%), P681R, Q613H (52%), R158-, T19R, T29A, T250I
Delta Morocco 14% 8 57
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Ghana 14% 13 96
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Botswana 12% 153 1,228
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Mauritius 12% 19 153
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Morocco 12% 7 57
B.1.617.2B.1.617.2 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (82%), F157- (83%), G142D (66%), P681R, R158- (82%), T19R
Delta Mauritius 12% 18 153
B.1B.1 Mutations
ProteinMutations
Spike (non-RBD)D614G
NA Uganda 10% 9 88
*Criteria: Above 10%, minimum of 50 samples per country.
Lineage WHO Label State Percent Lineage Count Total Count
AY.25AY.25 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (64%), P681R, R158-, S112L (51%), T19R
Delta Northern Mariana Islands 99% 402 406
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Louisiana 66% 2,598 3,965
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Texas 54% 9,533 17,753
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Georgia 52% 3,802 7,354
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Hawaii 49% 790 1,608
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Florida 43% 5,286 12,306
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Alabama 42% 611 1,443
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Montana 41% 637 1,559
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Maryland 41% 4,494 11,038
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Massachusetts 40% 19,174 47,666
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Delaware 39% 1,227 3,185
AY.44AY.44 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (89%), F157- (89%), G142D (64%), P681R, R158- (89%), T19R
Delta Alaska 37% 444 1,209
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Vermont 36% 1,874 5,163
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron South Carolina 36% 1,064 2,946
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron New York 36% 12,290 34,442
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Washington 35% 4,951 14,120
AY.103AY.103 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (68%), P681R, R158-, T19R
Delta Maine 35% 624 1,804
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Idaho 34% 873 2,533
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron New Jersey 34% 4,811 13,979
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron District of Columbia 33% 858 2,573
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Ohio 33% 2,732 8,386
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Utah 30% 3,473 11,491
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Mississippi 30% 618 2,055
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Oregon 29% 1,490 5,160
AY.103AY.103 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (68%), P681R, R158-, T19R
Delta Iowa 29% 858 2,983
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Wyoming 29% 566 1,975
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Wisconsin 28% 2,995 10,675
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Arkansas 28% 673 2,407
AY.103AY.103 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (68%), P681R, R158-, T19R
Delta Missouri 28% 1,138 4,137
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Colorado 27% 11,259 41,024
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Tennessee 27% 947 3,456
AY.103AY.103 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (68%), P681R, R158-, T19R
Delta Minnesota 27% 6,148 22,704
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Connecticut 27% 2,681 9,927
AY.103AY.103 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (68%), P681R, R158-, T19R
Delta Kansas 27% 953 3,540
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron North Dakota 26% 833 3,222
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Illinois 25% 3,160 12,745
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Arizona 25% 4,342 17,545
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron California 25% 19,818 80,825
AY.103AY.103 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (68%), P681R, R158-, T19R
Delta West Virginia 24% 896 3,692
AY.103AY.103 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (68%), P681R, R158-, T19R
Delta South Dakota 23% 255 1,091
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron North Carolina 22% 2,479 11,057
AY.103AY.103 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (68%), P681R, R158-, T19R
Delta Michigan 22% 2,317 10,517
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Nevada 22% 1,023 4,662
AY.103AY.103 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (68%), P681R, R158-, T19R
Delta Kentucky 21% 559 2,642
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Nebraska 20% 919 4,502
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Rhode Island 20% 605 2,967
AY.103AY.103 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (68%), P681R, R158-, T19R
Delta Pennsylvania 20% 1,855 9,405
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Oklahoma 19% 112 586
AY.103AY.103 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (68%), P681R, R158-, T19R
Delta Indiana 19% 1,288 6,761
AY.103AY.103 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (68%), P681R, R158-, T19R
Delta New Mexico 19% 986 5,300
AY.103AY.103 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (68%), P681R, R158-, T19R
Delta New Hampshire 18% 444 2,405
AY.103AY.103 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (68%), P681R, R158-, T19R
Delta Virginia 17% 894 5,125
*Criteria: Minimum of 20 samples per state.
Lineage WHO Label Country 2-Week Period Change Previous Support Current Support
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Lithuania 2022-01-10 7% -> 70% (+63%) 36 / 503 33 / 47
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Luxembourg 2021-12-27 21% -> 84% (+62%) 289 / 1,357 957 / 1,145
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron United Kingdom 2021-12-13 0% -> 62% (+62%) 177 / 112,376 66,820 / 107,446
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Romania 2021-12-27 9% -> 70% (+61%) 22 / 253 223 / 318
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Greece 2021-12-13 1% -> 63% (+61%) 12 / 828 204 / 325
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Liechtenstein 2021-12-27 18% -> 69% (+52%) 20 / 113 34 / 49
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Denmark 2021-12-13 0% -> 52% (+52%) 10 / 23,846 5,931 / 11,467
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Ireland 2021-12-13 1% -> 52% (+51%) 6 / 535 1,290 / 2,491
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Malta 2021-12-27 30% -> 78% (+48%) 50 / 167 54 / 69
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Norway 2021-12-13 0% -> 46% (+46%) 5 / 1,925 579 / 1,253
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Spain 2021-12-13 0% -> 45% (+44%) 7 / 3,603 1,981 / 4,445
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Turkey 2021-12-27 9% -> 52% (+43%) 171 / 2,009 1,273 / 2,458
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Portugal 2021-12-27 32% -> 75% (+43%) 289 / 913 759 / 1,013
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Bulgaria 2021-12-27 31% -> 73% (+42%) 31 / 100 87 / 119
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Russia 2021-12-13 1% -> 39% (+38%) 1 / 183 111 / 285
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Czechia 2021-12-27 8% -> 45% (+37%) 112 / 1,353 833 / 1,836
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Gibraltar 2021-12-13 7% -> 44% (+37%) 19 / 260 98 / 221
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Bosnia and Herzegovina 2021-12-27 3% -> 38% (+35%) 4 / 159 51 / 136
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Italy 2021-12-27 27% -> 61% (+34%) 1,207 / 4,505 1,993 / 3,293
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)D405N, E484A, G339D, K417N, N440K (85%), N501Y, Q493R, Q498R, R408S, S371F, S373P, S375F, S477N, T376A, T478K, Y505H
Spike (non-RBD)A27S (89%), D614G, D796Y, G142D (90%), H655Y, L24- (89%), N679K, N764K, N969K, P25- (89%), P26- (89%), P681H, Q954H, T19I, V213G
Omicron Austria 2022-01-10 3% -> 36% (+33%) 15 / 452 55 / 152
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Slovenia 2021-12-27 12% -> 44% (+32%) 196 / 1,627 787 / 1,786
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Sweden 2021-12-13 0% -> 32% (+32%) 4 / 4,118 805 / 2,543
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Belgium 2021-12-13 0% -> 29% (+29%) 5 / 3,247 769 / 2,634
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Poland 2021-12-27 3% -> 29% (+26%) 117 / 3,407 1,723 / 5,865
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Germany 2021-12-27 13% -> 38% (+26%) 2,806 / 21,810 7,714 / 20,071
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Netherlands 2021-12-27 9% -> 34% (+25%) 364 / 3,917 1,200 / 3,533
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Finland 2021-12-13 3% -> 27% (+23%) 38 / 1,154 248 / 926
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Switzerland 2021-12-13 0% -> 23% (+23%) 24 / 6,550 1,300 / 5,571
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron France 2021-12-13 0% -> 23% (+23%) 13 / 9,579 2,201 / 9,699
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Slovakia 2021-12-27 8% -> 29% (+20%) 27 / 323 95 / 332
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Croatia 2021-12-27 2% -> 19% (+17%) 53 / 2,982 293 / 1,550
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Montenegro 2021-11-15 19% -> 27% (+8%) 27 / 142 8 / 30
AY.127AY.127 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N (85%), E156G (84%), F157- (84%), G142D (68%), P681R, R158- (84%), T19R, T95I (80%)
Delta Estonia 2021-12-13 1% -> 7% (+6%) 3 / 340 17 / 240
*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.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Puerto Rico 2021-12-13 9% -> 71% (+62%) 7 / 76 445 / 628
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Canada 2021-12-13 0% -> 54% (+53%) 15 / 6,639 7,389 / 13,764
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Sint Maarten 2021-12-27 33% -> 70% (+37%) 30 / 90 98 / 140
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron United States 2021-12-13 0% -> 35% (+35%) 43 / 102,796 45,553 / 129,713
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Costa Rica 2021-12-13 1% -> 32% (+31%) 1 / 140 51 / 161
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Mexico 2021-12-13 0% -> 27% (+27%) 2 / 957 560 / 2,048
*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
AY.127AY.127 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N (85%), E156G (84%), F157- (84%), G142D (68%), P681R, R158- (84%), T19R, T95I (80%)
Delta Hong Kong 2022-01-10 2% -> 65% (+62%) 1 / 44 31 / 48
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)D405N, E484A, G339D, K417N, N440K (85%), N501Y, Q493R, Q498R, R408S, S371F, S373P, S375F, S477N, T376A, T478K, Y505H
Spike (non-RBD)A27S (89%), D614G, D796Y, G142D (90%), H655Y, L24- (89%), N679K, N764K, N969K, P25- (89%), P26- (89%), P681H, Q954H, T19I, V213G
Omicron Philippines 2021-12-27 40% -> 95% (+55%) 14 / 35 53 / 56
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)D405N, E484A, G339D, K417N, N440K (85%), N501Y, Q493R, Q498R, R408S, S371F, S373P, S375F, S477N, T376A, T478K, Y505H
Spike (non-RBD)A27S (89%), D614G, D796Y, G142D (90%), H655Y, L24- (89%), N679K, N764K, N969K, P25- (89%), P26- (89%), P681H, Q954H, T19I, V213G
Omicron Qatar 2021-12-27 23% -> 72% (+49%) 17 / 74 23 / 32
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Malaysia 2021-12-13 3% -> 50% (+48%) 9 / 348 229 / 454
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Israel 2021-12-13 0% -> 43% (+43%) 10 / 2,419 1,507 / 3,482
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Jordan 2021-12-13 8% -> 50% (+42%) 2 / 26 16 / 32
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Indonesia 2022-01-10 33% -> 73% (+40%) 441 / 1,350 457 / 626
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Japan 2021-12-13 1% -> 40% (+39%) 2 / 289 171 / 430
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)D405N, E484A, G339D, K417N, N440K (85%), N501Y, Q493R, Q498R, R408S, S371F, S373P, S375F, S477N, T376A, T478K, Y505H
Spike (non-RBD)A27S (89%), D614G, D796Y, G142D (90%), H655Y, L24- (89%), N679K, N764K, N969K, P25- (89%), P26- (89%), P681H, Q954H, T19I, V213G
Omicron India 2021-12-27 7% -> 43% (+36%) 181 / 2,459 1,046 / 2,406
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Georgia 2021-12-27 11% -> 45% (+34%) 12 / 112 76 / 170
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Singapore 2021-12-13 6% -> 38% (+32%) 24 / 423 261 / 694
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Nepal 2021-12-13 8% -> 37% (+29%) 3 / 38 10 / 27
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Sri Lanka 2021-12-27 8% -> 36% (+28%) 15 / 194 69 / 192
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron South Korea 2021-12-27 3% -> 30% (+27%) 53 / 1,764 281 / 938
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Bangladesh 2021-12-27 8% -> 35% (+27%) 9 / 107 31 / 88
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Thailand 2021-12-27 28% -> 54% (+26%) 327 / 1,164 336 / 622
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Maldives 2021-12-27 23% -> 48% (+25%) 26 / 113 24 / 50
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Cambodia 2021-12-27 8% -> 33% (+25%) 8 / 104 46 / 141
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Pakistan 2021-12-27 35% -> 56% (+20%) 11 / 31 19 / 34
AY.57AY.57 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R (86%), T478K (87%)
Spike (non-RBD)A222V (76%), D614G, D950N, E156G (80%), F157- (81%), G142D (66%), P681R, R158- (80%), T19R
Delta Vietnam 2021-11-15 68% -> 81% (+13%) 36 / 53 48 / 59
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Iraq 2021-12-27 8% -> 16% (+8%) 3 / 36 7 / 44
*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.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Australia 2021-12-13 0% -> 60% (+60%) 6 / 2,017 3,520 / 5,867
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron New Zealand 2022-01-10 28% -> 47% (+20%) 140 / 502 55 / 116
*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.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Brazil 2021-12-27 33% -> 82% (+49%) 503 / 1,521 1,008 / 1,222
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Bonaire 2021-12-27 15% -> 59% (+45%) 11 / 75 82 / 138
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Colombia 2021-12-13 2% -> 42% (+40%) 7 / 316 145 / 342
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron French Guiana 2021-12-27 33% -> 73% (+40%) 20 / 61 95 / 131
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Chile 2021-12-13 7% -> 37% (+30%) 33 / 506 571 / 1,555
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Curacao 2021-12-27 38% -> 67% (+29%) 20 / 53 30 / 45
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Argentina 2021-12-13 3% -> 31% (+28%) 20 / 613 273 / 881
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Peru 2021-12-13 0% -> 28% (+28%) 1 / 777 234 / 842
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Ecuador 2021-12-13 3% -> 25% (+21%) 3 / 91 26 / 106
AY.121AY.121 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (60%), P681R, R158-, T19R, T95I (86%)
Delta Aruba 2021-12-13 12% -> 32% (+21%) 5 / 43 23 / 71
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Trinidad And Tobago 2021-12-27 3% -> 12% (+9%) 2 / 72 5 / 42
*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.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron France (Réunion Island) 2021-12-13 0% -> 83% (+83%) 1 / 283 39 / 47
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Botswana 2021-12-13 22% -> 87% (+66%) 25 / 116 382 / 437
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Nigeria 2021-12-13 5% -> 66% (+60%) 3 / 57 46 / 70
AY.46AY.46 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (87%), F157- (88%), G142D (70%), P681R, R158- (87%), T19R
Delta Uganda 2021-11-15 4% -> 54% (+50%) 1 / 25 20 / 37
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Senegal 2021-12-27 45% -> 85% (+40%) 9 / 20 17 / 20
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Kenya 2021-12-13 6% -> 33% (+27%) 2 / 33 108 / 329
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Egypt 2021-12-27 12% -> 31% (+19%) 7 / 58 23 / 75
BA.2BA.2 (Omicron) Mutations
ProteinMutations
Spike (RBD)D405N, E484A, G339D, K417N, N440K (85%), N501Y, Q493R, Q498R, R408S, S371F, S373P, S375F, S477N, T376A, T478K, Y505H
Spike (non-RBD)A27S (89%), D614G, D796Y, G142D (90%), H655Y, L24- (89%), N679K, N764K, N969K, P25- (89%), P26- (89%), P681H, Q954H, T19I, V213G
Omicron South Africa 2022-01-10 17% -> 32% (+15%) 79 / 459 33 / 103
AY.124.1AY.124.1 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G (89%), F157-, P681R, R158-, T19R, T95I (83%)
Delta Mauritius 2021-12-13 48% -> 61% (+13%) 38 / 79 35 / 57
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Ghana 2021-11-15 4% -> 17% (+13%) 1 / 28 11 / 66
AY.122AY.122 (Delta) Mutations
ProteinMutations
Spike (RBD)L452R, T478K
Spike (non-RBD)D614G, D950N, E156G, F157-, G142D (58%), P681R, R158-, T19R
Delta Seychelles 2021-11-15 89% -> 99% (+10%) 24 / 27 129 / 130
*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.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Texas 2021-12-13 0% -> 73% (+73%) 1 / 2,886 5,383 / 7,418
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Hawaii 2021-12-13 1% -> 68% (+67%) 2 / 264 354 / 520
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron New York 2021-12-13 0% -> 55% (+55%) 13 / 5,159 6,191 / 11,307
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Maryland 2021-12-13 0% -> 54% (+54%) 6 / 1,915 2,097 / 3,868
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Vermont 2021-12-27 39% -> 92% (+53%) 120 / 306 1,064 / 1,158
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Massachusetts 2021-12-27 43% -> 90% (+47%) 3,379 / 7,913 12,867 / 14,356
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Pennsylvania 2021-12-27 16% -> 57% (+40%) 308 / 1,905 765 / 1,351
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Minnesota 2021-12-27 12% -> 53% (+40%) 277 / 2,297 1,912 / 3,641
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron New Hampshire 2021-12-27 15% -> 55% (+40%) 50 / 336 278 / 508
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Montana 2021-12-27 25% -> 65% (+39%) 57 / 226 351 / 543
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Wisconsin 2021-12-13 0% -> 39% (+39%) 1 / 2,586 1,253 / 3,183
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron West Virginia 2021-12-27 7% -> 46% (+39%) 71 / 1,006 223 / 483
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Delaware 2021-12-27 24% -> 62% (+38%) 102 / 418 945 / 1,516
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron North Dakota 2021-12-27 13% -> 50% (+38%) 102 / 792 394 / 781
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Florida 2021-12-13 0% -> 37% (+37%) 1 / 1,414 1,712 / 4,576
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Colorado 2021-12-27 36% -> 73% (+37%) 3,399 / 9,533 6,799 / 9,333
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron South Dakota 2021-12-27 9% -> 46% (+37%) 25 / 284 125 / 274
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Arizona 2021-12-27 13% -> 49% (+36%) 416 / 3,198 2,428 / 4,957
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Arkansas 2021-12-27 8% -> 44% (+36%) 25 / 311 495 / 1,130
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Kentucky 2021-12-27 11% -> 47% (+36%) 68 / 598 80 / 170
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron California 2021-12-13 0% -> 35% (+35%) 3 / 14,591 10,140 / 28,795
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Connecticut 2021-12-13 0% -> 35% (+35%) 1 / 1,926 854 / 2,433
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Missouri 2021-12-27 8% -> 42% (+35%) 86 / 1,142 428 / 1,017
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Maine 2021-12-27 8% -> 43% (+35%) 31 / 382 122 / 286
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Nevada 2021-12-27 25% -> 58% (+34%) 263 / 1,073 631 / 1,083
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Kansas 2021-12-27 6% -> 40% (+34%) 41 / 651 296 / 742
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron New Mexico 2021-12-27 7% -> 40% (+33%) 61 / 853 458 / 1,136
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Indiana 2021-12-27 10% -> 43% (+33%) 127 / 1,336 358 / 840
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Oregon 2021-12-27 23% -> 55% (+32%) 184 / 807 1,136 / 2,056
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Wyoming 2021-12-27 14% -> 46% (+32%) 32 / 229 334 / 722
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Washington 2021-12-13 0% -> 32% (+32%) 1 / 2,022 1,148 / 3,551
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Rhode Island 2021-12-27 27% -> 59% (+32%) 158 / 595 383 / 653
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron North Carolina 2021-12-27 15% -> 47% (+32%) 402 / 2,607 1,479 / 3,135
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Alaska 2021-12-27 16% -> 47% (+31%) 22 / 138 120 / 253
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Idaho 2021-12-27 26% -> 58% (+31%) 155 / 591 501 / 871
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Nebraska 2021-12-27 8% -> 39% (+31%) 52 / 689 400 / 1,036
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Iowa 2021-12-27 13% -> 43% (+31%) 74 / 591 246 / 567
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron South Carolina 2021-12-27 26% -> 56% (+30%) 162 / 619 664 / 1,177
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron Oklahoma 2021-12-27 16% -> 46% (+30%) 20 / 124 75 / 163
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Virginia 2021-12-27 15% -> 44% (+29%) 164 / 1,085 340 / 766
BA.1BA.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D (90%), G446S (51%), G496S (88%), N440K (50%), N501Y (88%), Q493R (89%), Q498R (88%), S371L (83%), S373P (83%), S375F (83%), S477N (88%), T478K (88%), Y505H (88%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (87%), L981F, N211- (87%), N679K, N764K (79%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (79%)
Omicron New Jersey 2021-12-13 0% -> 28% (+28%) 1 / 2,218 1,201 / 4,227
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Utah 2022-01-10 42% -> 70% (+28%) 1,549 / 3,646 1,450 / 2,061
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Tennessee 2021-12-13 0% -> 27% (+27%) 1 / 689 258 / 965
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Mississippi 2021-12-27 23% -> 48% (+25%) 84 / 367 439 / 910
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Alabama 2021-12-27 34% -> 60% (+25%) 120 / 350 438 / 736
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Louisiana 2022-01-10 14% -> 39% (+25%) 268 / 1,935 76 / 195
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Michigan 2022-01-10 33% -> 58% (+25%) 447 / 1,337 148 / 253
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Ohio 2021-12-27 49% -> 72% (+23%) 1,275 / 2,618 1,052 / 1,468
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron District of Columbia 2021-12-27 30% -> 52% (+23%) 291 / 980 234 / 448
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Illinois 2021-12-27 10% -> 29% (+19%) 355 / 3,611 652 / 2,246
BA.1.1BA.1.1 (Omicron) Mutations
ProteinMutations
Spike (RBD)E484A (88%), G339D, G446S (61%), G496S (88%), K417N (55%), N440K (60%), N501Y (88%), Q493R (89%), Q498R (87%), R346K, S371L, S373P, S375F, S477N (88%), T478K (88%), Y505H (87%)
Spike (non-RBD)A67V, D614G, D796Y, G142D, H69-, H655Y, L212I (85%), L981F, N211- (85%), N679K, N764K (85%), N856K, N969K, P681H, Q954H, T95I, T547K, V70-, V143-, Y144-, Y145-, ins214EPE (74%)
Omicron Georgia 2021-12-27 57% -> 69% (+12%) 1,567 / 2,765 1,677 / 2,435
*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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