COVID-19 Viral Genome Analysis Pipeline
Enabled by data from
Most common spike forms based on Pango lineage designations
Last update: Sep 12, 2021
Sequences: Short list of Last 60 days
As new lineages emerge, there are often many sequences with many ambiguous base calls. Our pipeline filters out such sequences, and as a consequence we undercount the number of sequences in GISAID that have been specified as members of related Pango lineages. Our strategy, however, enables us to use strictly high quality sequences to identify and track the common Spike forms in emerging lineages.
COMMON FORMS OF SPIKE WITH A GIVEN PANGO LINEAGE DESIGNATION
For each lineage, we show the most common forms of Spike, as well as their counts within (and percentages of) the lineage. [Note that if a lineage contains several divergent forms of Spike, the consensus form might not be found among these common forms.] Also shown is the Hamming distance (HD) between each form and the most common form in that lineage. Deletions relative to the ancestral reference strain are indicated with a dash (e.g. the two amino acid deletion in Delta variant are indicated as: 'E156-,F157-'), and insertions are denoted by a plus sign (e.g. B.1.621 usually has an extra T at position 143, it is written '+143T').
We show the 5 most common forms. This output is based on sequences sampled in the last 60 days from our last update, from 2021-07-02 to 2021-08-31.
Pango Lineage Form Form Lineage Count Count Pct HD [Spike form as mutation string] B.1.617.2 181635 63571 35.0% 0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) B.1.617.2 181635 26294 14.5% 1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] B.1.617.2 181635 13014 7.2% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] B.1.617.2 181635 7467 4.1% 2 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] B.1.617.2 181635 5442 3.0% 1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] AY.4 110426 72868 66.0% 0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.4 110426 2718 2.5% 1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.4 110426 1867 1.7% 2 [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] AY.4 110426 1690 1.5% 2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.4 110426 1301 1.2% 1 [T19R,T95I,D138H,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.25 14539 4090 28.1% 0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.25 14539 3385 23.3% 1 [T19R,S112L,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.25 14539 2167 14.9% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.25 14539 1599 11.0% 2 [T19R,S112L,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.25 14539 222 1.5% 2 [T19R,S112L,G142D,E156G,F157-,R158-,L452R,T478K,A522V,D614G,P681R,D950N] B.1.1.7 12383 5731 46.3% 0 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] (consensus) B.1.1.7 12383 493 4.0% 1 [H69-,V70-,Y144-,W152R,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] B.1.1.7 12383 328 2.6% 1 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,S704L,T716I,S982A,D1118H] B.1.1.7 12383 261 2.1% 1 [H69-,V70-,S98F,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] B.1.1.7 12383 161 1.3% 1 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H,K1191N] AY.9 10492 7043 67.1% 0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus) AY.9 10492 1128 10.8% 1 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] AY.9 10492 419 4.0% 1 [T19R,A67V,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] AY.9 10492 112 1.1% 2 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,G1124V] AY.9 10492 103 1.0% 1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] AY.3 10192 5052 49.6% 0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.3 10192 2206 21.6% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.3 10192 339 3.3% 1 [T19R,V70I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.3 10192 337 3.3% 2 [T19R,V70I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.3 10192 183 1.8% 2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R] AY.5 9993 7327 73.3% 0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.5 9993 829 8.3% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.5 9993 69 0.7% 1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,R683Q,D950N] AY.5 9993 63 0.6% 1 [T19R,G142D,E156G,F157-,R158-,V362F,L452R,T478K,D614G,P681R,D950N] AY.5 9993 57 0.6% 2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R] AY.12 8502 2975 35.0% 0 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.12 8502 615 7.2% 2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.12 8502 595 7.0% 1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.12 8502 263 3.1% 1 [T19R,E156G,F157-,R158-,L452R,T478K,A570S,D614G,P681R,D950N] AY.12 8502 261 3.1% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R] P.1 5020 2656 52.9% 0 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F] (consensus) P.1 5020 736 14.7% 1 [L18F,T20N,P26S,H49Y,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F] P.1 5020 45 0.9% 1 [L18F,T20N,P26S,D138Y,R190S,K417T,D427N,E484K,N501Y,D614G,H655Y,T1027I,V1176F] P.1 5020 39 0.8% 2 [L18F,T20N,P26S,R78K,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F,S1252F] P.1 5020 34 0.7% 1 [L18F,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F] B.1 3652 907 24.8% 0 [D614G] (consensus) B.1 3652 498 13.6% 3 [T19R,E484K,D614G,D950N] B.1 3652 350 9.6% 1 [N501Y,D614G] B.1 3652 225 6.2% 2 [T19R,N501Y,D614G] B.1 3652 222 6.1% 3 [T19R,N501Y,D614G,D950N] AY.6 3546 2470 69.7% 0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.6 3546 365 10.3% 2 [T19R,T22I,A67V,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.6 3546 184 5.2% 1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,I1115V] AY.6 3546 118 3.3% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.6 3546 51 1.4% 1 [T19R,T22I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.23 3218 2522 78.4% 0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1264L] (consensus) AY.23 3218 156 4.8% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1264L] AY.23 3218 47 1.5% 1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1070V,V1264L] AY.23 3218 29 0.9% 1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.23 3218 22 0.7% 2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,V1264L] AY.20 2701 618 22.9% 0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] AY.20 2701 538 19.9% 1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] (consensus) AY.20 2701 264 9.8% 1 [T19R,T95I,K97E,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] AY.20 2701 187 6.9% 2 [T19R,T95I,K97E,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] AY.20 2701 154 5.7% 2 [T19R,T95I,K97E,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L,V1177I] AY.7.1 2611 1793 68.7% 0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.7.1 2611 544 20.8% 1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A688V,D950N] AY.7.1 2611 57 2.2% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.7.1 2611 20 0.8% 1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,S1242I] AY.7.1 2611 15 0.6% 1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,R1091L] AY.14 2235 1328 59.4% 0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.14 2235 465 20.8% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.14 2235 55 2.5% 2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R] AY.14 2235 16 0.7% 1 [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.14 2235 13 0.6% 2 [T19R,E156G,F157-,R158-,L452R,T478K,T547I,D614G,P681R,D950N] AY.10 1725 635 36.8% 0 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.10 1725 212 12.3% 1 [T19R,E156G,F157-,R158-,T478K,D614G,P681R,D950N] AY.10 1725 111 6.4% 2 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] AY.10 1725 100 5.8% 1 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] AY.10 1725 64 3.7% 1 [T19R,E156G,F157-,R158-,L452R,T478K,N501Y,D614G,P681R,D950N] AY.3.1 1531 660 43.1% 0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.3.1 1531 558 36.4% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.3.1 1531 38 2.5% 1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A846V,D950N] AY.3.1 1531 35 2.3% 2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R] AY.3.1 1531 23 1.5% 2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A846V,D950N] B.1.160 1348 1302 96.6% 0 [D614G] (consensus) B.1.160 1348 19 1.4% 1 [D614G,F888L] B.1.160 1348 16 1.2% 1 [N501Y,D614G] B.1.160 1348 2 0.1% 1 [E484K,D614G] B.1.160 1348 2 0.1% 2 [W258L,S477N,D614G] AY.7 1293 950 73.5% 0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.7 1293 65 5.0% 1 [T19R,G142D,E156G,F157-,R158-,Y265C,L452R,T478K,D614G,P681R,D950N] AY.7 1293 42 3.2% 2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D796Y,D950N,L1224S] AY.7 1293 23 1.8% 1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.7 1293 22 1.7% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.24 1247 521 41.8% 0 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.24 1247 230 18.4% 2 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] AY.24 1247 84 6.7% 1 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] AY.24 1247 66 5.3% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R] AY.24 1247 26 2.1% 3 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,M1237I] B.1.621 1153 466 40.4% 0 [T95I,+143T,Y144S,Y145N,R346K,E484K,N501Y,D614G,P681H,D950N] (consensus) B.1.621 1153 170 14.7% 1 [T95I,+143T,Y144S,Y145N,R346K,K417N,E484K,N501Y,D614G,P681H,D950N] B.1.621 1153 95 8.2% 1 [T95I,+143T,Y144S,Y145N,R346K,E484K,N501Y,D614G,P681H,D950N,M1229I] B.1.621 1153 27 2.3% 1 [T95I,+143T,Y144S,Y145N,R346K,E484K,N501Y,T572I,D614G,P681H,D950N] B.1.621 1153 23 2.0% 1 [T95I,+143T,Y144S,Y145N,R346K,E484K,N501Y,D614G,P681H] AY.13 882 401 45.5% 0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.13 882 188 21.3% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.13 882 51 5.8% 1 [T19R,G142D,E156G,F157-,R158-,I210-,L452R,T478K,D614G,P681R,D950N] AY.13 882 42 4.8% 2 [T19R,E156G,F157-,R158-,I210-,L452R,T478K,D614G,P681R,D950N] AY.13 882 24 2.7% 1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,V483F,D614G,P681R,D950N] B.1.1 783 465 59.4% 0 [D614G] (consensus) B.1.1 783 39 5.0% 1 [N501Y,D614G] B.1.1 783 38 4.9% 2 [E484K,N501Y,D614G] B.1.1 783 32 4.1% 1 [E484K,D614G] B.1.1 783 32 4.1% 1 [D614G,F888L] AY.15 754 431 57.2% 0 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.15 754 105 13.9% 1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.15 754 32 4.2% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R] AY.15 754 24 3.2% 1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.15 754 13 1.7% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,N777S,D950N] AY.7.2 634 207 32.6% 0 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.7.2 634 153 24.1% 1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.7.2 634 104 16.4% 1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.7.2 634 59 9.3% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1167V] AY.7.2 634 11 1.7% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R] AY.2 608 365 60.0% 0 [T19R,V70F,G142D,E156G,F157-,R158-,A222V,K417N,L452R,T478K,D614G,P681R,D950N] (consensus) AY.2 608 142 23.4% 1 [T19R,V70F,E156G,F157-,R158-,A222V,K417N,L452R,T478K,D614G,P681R,D950N] AY.2 608 17 2.8% 2 [T19R,V70F,E156G,F157-,R158-,A222V,K417N,L452R,T478K,D614G,P681R] AY.2 608 5 0.8% 2 [T19R,V70F,E156G,F157-,R158-,A222V,K417N,L452R,T478K,E583D,D614G,P681R,D950N] AY.2 608 5 0.8% 1 [T19R,V70F,G142D,E156G,F157-,R158-,A222V,K417N,L452R,T478K,E583D,D614G,P681R,D950N] B.1.619.1 495 427 86.3% 0 [I210T,N440K,E484K,D614G,D936N,S939F,T1027I] (consensus) B.1.619.1 495 12 2.4% 1 [T20I,I210T,N440K,E484K,D614G,D936N,S939F,T1027I] B.1.619.1 495 6 1.2% 1 [I210T,E484K,D614G,D936N,S939F,T1027I] B.1.619.1 495 6 1.2% 1 [N185D,I210T,N440K,E484K,D614G,D936N,S939F,T1027I] B.1.619.1 495 5 1.0% 1 [I210T,A222V,N440K,E484K,D614G,D936N,S939F,T1027I] C.37 477 246 51.6% 0 [G75V,T76I,R246N,S247-,Y248-,L249-,T250-,P251-,G252-,D253-,L452Q,F490S,D614G,T859N] (consensus) C.37 477 16 3.4% 1 [G75V,T76I,R246N,S247-,Y248-,L249-,T250-,P251-,G252-,D253-,L452Q,F490S,D614G,Q675H,T859N] C.37 477 11 2.3% 1 [T20S,G75V,T76I,R246N,S247-,Y248-,L249-,T250-,P251-,G252-,D253-,L452Q,F490S,D614G,T859N] C.37 477 10 2.1% 1 [G75V,T76I,H146-,R246N,S247-,Y248-,L249-,T250-,P251-,G252-,D253-,L452Q,F490S,D614G,T859N] C.37 477 9 1.9% 1 [G75V,T76I,R246N,S247-,Y248-,L249-,T250-,P251-,G252-,D253-,L452Q,F490S,D614G,P681S,T859N] P.1.7 430 277 64.4% 0 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,P681H,T1027I,V1176F] (consensus) P.1.7 430 21 4.9% 1 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,Q613H,D614G,H655Y,P681H,T1027I,V1176F] P.1.7 430 12 2.8% 1 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,P681H,T1027I,K1045R,V1176F] P.1.7 430 7 1.6% 1 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F] P.1.7 430 7 1.6% 2 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,P681H,T1027I,K1045R,V1176F,C1250F] B.1.628 345 169 49.0% 0 [L18R,T95I,R158S,N440K,D614G,P681H,A688V,S735A,T1027I] (consensus) B.1.628 345 17 4.9% 1 [L18R,T95I,R158S,D614G,P681H,A688V,S735A,T1027I] B.1.628 345 13 3.8% 1 [L18R,T95I,R158S,N440K,D614G,P681H,A688V,S735A,S939F,T1027I] B.1.628 345 10 2.9% 2 [L18R,T95I,R158S,N440K,Q613H,D614G,P681H,A688V,S735A,T1027I,G1124V] B.1.628 345 8 2.3% 2 [L18R,T19I,T95I,R158S,N440K,D614G,P681H,A688V,S735A,S939F,T1027I] B.1.243 307 191 62.2% 0 [L452R,D614G,P681R] (consensus) B.1.243 307 51 16.6% 1 [L452R,T478K,D614G,P681R] B.1.243 307 16 5.2% 1 [D614G,P681R] B.1.243 307 10 3.3% 3 [L452R,T478K,E484K,N501Y,D614G,P681R] B.1.243 307 8 2.6% 1 [F157S,L452R,D614G,P681R] B.1.621.1 297 146 49.2% 0 [T95I,+143T,Y144S,Y145N,R346K,E484K,N501Y,D614G,P681H,D950N] (consensus) B.1.621.1 297 64 21.5% 1 [T95I,+143T,Y144S,Y145N,R346K,E484K,N501Y,D614G,P681H,S939F,D950N] B.1.621.1 297 9 3.0% 1 [T95I,Y144S,Y145N,R346K,E484K,N501Y,D614G,P681H,D950N] B.1.621.1 297 9 3.0% 2 [L5F,T95I,+143T,Y144S,Y145N,R346K,E484K,N501Y,D614G,P681H,S939F,D950N] B.1.621.1 297 6 2.0% 1 [T95I,+143T,Y144S,Y145N,R346K,E484K,N501Y,D614G,P681H,D950N,C1250F] AY.21 292 135 46.2% 0 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.21 292 42 14.4% 1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.21 292 18 6.2% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.21 292 12 4.1% 1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,M1237I] AY.21 292 5 1.7% 3 [T19R,K77T,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] B.1.153 261 239 91.6% 0 [N501Y,D614G] (consensus) B.1.153 261 8 3.1% 1 [T19R,N501Y,D614G] B.1.153 261 6 2.3% 3 [L242-,A243-,L244-,N501Y,D614G] B.1.153 261 2 0.8% 1 [D614G] B.1.153 261 2 0.8% 1 [N501Y,D614G,P681R] B.1.526 252 73 29.0% 0 [L5F,T95I,D253G,E484K,D614G,A701V] (consensus) B.1.526 252 27 10.7% 2 [L5F,T95I,D253G,S477N,D614G,A701V] B.1.526 252 22 8.7% 4 [L5F,T95I,D253G,S477N,D614G,Q957R] B.1.526 252 20 7.9% 1 [L5F,T95I,D253G,E484K,D614G,A701V,M1233V] B.1.526 252 15 6.0% 5 [L5F,L18F,T95I,D253G,S477N,D614G,Q957R] P.1.10 234 100 42.7% 0 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F] (consensus) P.1.10 234 91 38.9% 1 [L18F,T20N,P26S,D138Y,Q183H,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F] P.1.10 234 5 2.1% 1 [L18F,T20N,P26S,D138Y,R190S,A263V,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F] P.1.10 234 5 2.1% 1 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,P1162S,V1176F] P.1.10 234 4 1.7% 1 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,N606K,D614G,H655Y,T1027I,V1176F] B.1.637 226 68 30.1% 0 [D80G,Y144-,F157S,L452R,D614G,T859N,D950H] (consensus) B.1.637 226 56 24.8% 1 [D80G,Y144-,F157S,L452R,D614G,P681H,T859N,D950H] B.1.637 226 14 6.2% 1 [D80G,Y144-,F157S,L452R,D614G,T791I,T859N,D950H] B.1.637 226 11 4.9% 1 [D80G,Y144-,F157S,L452R,D614G,A668S,T859N,D950H] B.1.637 226 8 3.5% 1 [D80G,Y144-,F157S,G181A,L452R,D614G,T859N,D950H] AY.1 224 128 57.1% 0 [T19R,T95I,G142D,E156G,F157-,R158-,W258L,K417N,L452R,T478K,D614G,P681R,D950N] (consensus) AY.1 224 36 16.1% 1 [T19R,T95I,E156G,F157-,R158-,W258L,K417N,L452R,T478K,D614G,P681R,D950N] AY.1 224 11 4.9% 2 [T19R,G142D,E156G,F157-,R158-,K417N,L452R,T478K,D614G,P681R,D950N] AY.1 224 6 2.7% 2 [T19R,T95I,E156G,F157-,R158-,W258L,K417N,L452R,T478K,D614G,P681R] AY.1 224 4 1.8% 1 [T19R,T95I,G142D,E156G,F157-,R158-,W258L,K417N,L452R,T478K,D614G,P681R,D950N,M1237I] AY.16 204 76 37.3% 0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.16 204 53 26.0% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.16 204 13 6.4% 2 [T19R,G142D,Y144-,E156G,F157-,R158-,D215H,L452R,T478K,D614G,P681R,D950N] AY.16 204 12 5.9% 1 [T19R,G142D,E156G,F157-,R158-,S255F,L452R,T478K,D614G,P681R,D950N] AY.16 204 6 2.9% 1 [T19R,G142D,Y144-,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.19 173 52 30.1% 0 [T19R,E156G,F157-,R158-,M177I,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] AY.19 173 21 12.1% 2 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] AY.19 173 13 7.5% 1 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] (consensus) AY.19 173 9 5.2% 4 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1153Y] AY.19 173 7 4.0% 3 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.8 171 131 76.6% 0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.8 171 15 8.8% 1 [T19R,G142D,E156G,F157-,R158-,S221L,L452R,T478K,D614G,P681R,D950N] AY.8 171 4 2.3% 1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1251R] AY.8 171 3 1.8% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.8 171 2 1.2% 1 [T19R,G142D,E156G,F157-,R158-,G252V,L452R,T478K,D614G,P681R,D950N] B.60 166 98 59.0% 0 [N501Y,D614G] (consensus) B.60 166 60 36.1% 1 [D614G] B.60 166 6 3.6% 1 [N501Y,D614G,T716I] B.60 166 1 0.6% 2 [K417N,N501Y,D614G,T716I] B.60 166 1 0.6% 2 [K417N,D614G] Q.3 158 54 34.2% 0 [H69-,V70-,Y144-,D178H,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] (consensus) Q.3 158 50 31.6% 2 [H69-,V70-,Y144-,F490S,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] Q.3 158 19 12.0% 1 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] Q.3 158 11 7.0% 2 [H69-,V70-,Y144-,M177I,D178H,A222V,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] Q.3 158 6 3.8% 1 [H69-,V70-,Y144-,D178H,N501Y,A570D,D614G,P681H,A684T,T716I,S982A,D1118H] B.1.351 135 38 28.1% 0 [L18F,D80A,D215G,L242-,A243-,L244-,K417N,E484K,N501Y,D614G,A701V] B.1.351 135 24 17.8% 1 [D80A,D215G,L242-,A243-,L244-,K417N,E484K,N501Y,D614G,A701V] (consensus) B.1.351 135 12 8.9% 2 [D80A,D215G,L242-,A243-,L244-,K417N,E484K,N501Y,D614G,S689R,A701V] B.1.351 135 6 4.4% 2 [D80A,L242-,A243-,L244-,K417N,E484K,N501Y,D614G,A701V] B.1.351 135 4 3.0% 2 [A27S,D80A,D215G,L242-,A243-,L244-,K417N,E484K,N501Y,D614G,A701V] A.2.5 125 39 31.2% 0 [L141-,G142Y,V143-,Y144-,+214AAG,D215Y,L452R,D614G] (consensus) A.2.5 125 8 6.4% 2 [L141-,G142Y,V143-,Y144-,W152R,+214AAG,D215Y,A263S,L452R,D614G] A.2.5 125 6 4.8% 1 [S13I,L141-,G142Y,V143-,Y144-,+214AAG,D215Y,L452R,D614G] A.2.5 125 5 4.0% 1 [S98F,L141-,G142Y,V143-,Y144-,+214AAG,D215Y,L452R,D614G] A.2.5 125 4 3.2% 4 [L141-,G142Y,V143-,Y144-,L452R,D614G] P.1.1 109 55 50.5% 0 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,P681H,T1027I,V1176F] (consensus) P.1.1 109 31 28.4% 1 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F] P.1.1 109 5 4.6% 2 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,A845S,T1027I,V1176F] P.1.1 109 4 3.7% 4 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,Q607H,D614G,H655Y,P812S,S813N,T1027I,V1176F] P.1.1 109 3 2.8% 1 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,P681H,F817L,T1027I,V1176F] AZ.2 100 92 92.0% 0 [T95I,Y144-,E484K,D614G,P681H,D796H] (consensus) AZ.2 100 2 2.0% 1 [T95I,V143D,Y144-,E484K,D614G,P681H,D796H] AZ.2 100 2 2.0% 1 [L5F,T95I,Y144-,E484K,D614G,P681H,D796H] AZ.2 100 1 1.0% 1 [T95I,Y144-,R273S,E484K,D614G,P681H,D796H] AZ.2 100 1 1.0% 2 [T95I,Y144-,G261C,E484K,D614G,P681H,I788T,D796H] B.1.234 98 78 79.6% 0 [D614G] (consensus) B.1.234 98 6 6.1% 1 [N501Y,D614G] B.1.234 98 6 6.1% 2 [T19R,N501Y,D614G] B.1.234 98 6 6.1% 1 [R78G,D614G] B.1.234 98 1 1.0% 2 [L5F,D614G,N1074D] AY.22 97 32 33.0% 0 [T19R,T95I,E156G,F157-,R158-,Q218H,L452R,T478K,D614G,P681R,D950N,V1104L] (consensus) AY.22 97 12 12.4% 6 [T19R,P25H,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] AY.22 97 11 11.3% 1 [T19R,T95I,G142D,E156G,F157-,R158-,Q218H,L452R,T478K,D614G,P681R,D950N,V1104L] AY.22 97 7 7.2% 1 [T19R,T95I,E156G,F157-,R158-,M177I,Q218H,L452R,T478K,D614G,P681R,D950N,V1104L] AY.22 97 4 4.1% 1 [T19R,D80G,T95I,E156G,F157-,R158-,Q218H,L452R,T478K,D614G,P681R,D950N,V1104L] AY.5.2 93 46 49.5% 0 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.5.2 93 23 24.7% 1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.5.2 93 5 5.4% 2 [T19R,G142D,E156G,F157-,R158-,G261D,L452R,T478K,D614G,P681R,D950N] AY.5.2 93 3 3.2% 1 [T19R,W152L,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.5.2 93 2 2.2% 2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,N1074D,M1233L] B.1.619 87 15 17.2% 0 [I210T,N440K,E484K,D614G,D936N,S939F,T1027I] B.1.619 87 7 8.0% 2 [L5F,I210T,N440K,E484K,D614G,D936N,S939F,T1027I,G1124V] B.1.619 87 6 6.9% 7 [T19R,D614G,D950N,T1027I] B.1.619 87 6 6.9% 1 [I210T,N440K,E484K,D614G,E619K,D936N,S939F,T1027I] B.1.619 87 4 4.6% 5 [I210T,D614G,D950N,T1027I] AY.5.1 83 53 63.9% 0 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.5.1 83 24 28.9% 1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] AY.5.1 83 2 2.4% 1 [T19R,E156G,F157-,R158-,L452R,T478K,T572I,D614G,P681R,D950N] AY.5.1 83 2 2.4% 1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R] AY.5.1 83 1 1.2% 1 [T19R,E156G,F157-,R158-,T240I,L452R,T478K,D614G,P681R,D950N] B.1.2 79 36 45.6% 0 [D614G] (consensus) B.1.2 79 20 25.3% 8 [L18R,T95I,R158S,N440K,D614G,P681H,A688V,S735A,T1027I] B.1.2 79 3 3.8% 7 [L18R,T95I,R158S,D614G,P681H,A688V,S735A,T1027I] B.1.2 79 3 3.8% 9 [L18R,T95I,R158S,N440K,D614G,P681H,A688V,S735A,A879S,T1027I] B.1.2 79 2 2.5% 2 [N30S,D614G,K1191N] B.1.620 77 47 61.0% 0 [P26S,H69-,V70-,V126A,Y144-,L242-,A243-,L244-,H245Y,S477N,E484K,D614G,P681H,T1027I,D1118H] (consensus) B.1.620 77 10 13.0% 1 [P26S,H69-,V70-,V126A,N137S,Y144-,L242-,A243-,L244-,H245Y,S477N,E484K,D614G,P681H,T1027I,D1118H] B.1.620 77 2 2.6% 4 [P26S,H69-,V70-,V126A,Y144-,S477N,E484K,D614G,P681H,T1027I,D1118H] B.1.620 77 2 2.6% 1 [P26S,H69-,V70-,V126A,Y144-,L242-,A243-,L244-,H245Y,S477N,E484K,D614G,P681H,T1027I,D1118H,G1219C] B.1.620 77 2 2.6% 1 [L5F,P26S,H69-,V70-,V126A,Y144-,L242-,A243-,L244-,H245Y,S477N,E484K,D614G,P681H,T1027I,D1118H] C.37.1 71 51 71.8% 0 [R21I,G75V,T76I,R246N,S247-,Y248-,L249-,T250-,P251-,G252-,D253-,L452Q,F490S,T572I,D614G,Q675H,T859N] (consensus) C.37.1 71 7 9.9% 3 [G75V,T76I,R246N,S247-,Y248-,L249-,T250-,P251-,G252-,D253-,L452Q,F490S,D614G,T859N] C.37.1 71 3 4.2% 8 [R21I,G75V,T76I,L452Q,F490S,T572I,D614G,Q675H,T859N] C.37.1 71 2 2.8% 4 [L18F,G75V,T76I,Q173R,R246N,S247-,Y248-,L249-,T250-,P251-,G252-,D253-,L452Q,F490S,D614G,Q675H,T859N] C.37.1 71 2 2.8% 5 [G75V,T76I,R246N,S247-,Y248-,L249-,T250-,P251-,G252-,D253-,L452Q,F490S,D614G,V826L,T859N,D1199N] B.1.1.318 70 34 48.6% 0 [T95I,Y144-,E484K,D614G,P681H,D796H] (consensus) B.1.1.318 70 7 10.0% 4 [T95I,Y144-,H146Q,W152R,E484K,D614G,Q677H,P681H,D796H,T859I] B.1.1.318 70 5 7.1% 1 [T95I,Y144-,E484K,D614G,P681H,D796H,S939F] B.1.1.318 70 3 4.3% 1 [T95I,Y144-,G181V,E484K,D614G,P681H,D796H] B.1.1.318 70 2 2.9% 1 [L5F,T95I,Y144-,E484K,D614G,P681H,D796H] B.1.1.528 67 12 17.9% 0 [T19R,D614G,P681R,D950N] (consensus) B.1.1.528 67 8 11.9% 1 [T19R,N501Y,D614G,P681R,D950N] B.1.1.528 67 7 10.4% 2 [T19R,L452R,T478K,D614G,P681R,D950N] B.1.1.528 67 4 6.0% 3 [T19R,L452R,T478K,E484K,D614G,P681R,D950N] B.1.1.528 67 4 6.0% 4 [T19R,L452R,T478K,E484K,N501Y,D614G,P681R,D950N] P.1.2 65 42 64.6% 0 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F] (consensus) P.1.2 65 4 6.2% 1 [L18F,T20N,P26S,D138Y,R190S,A262S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F] P.1.2 65 3 4.6% 1 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,A522V,D614G,H655Y,T1027I,V1176F] P.1.2 65 2 3.1% 1 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1096I,V1176F] P.1.2 65 2 3.1% 1 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F,C1243F] C.36.3 59 30 50.8% 0 [S12F,H69-,V70-,W152R,R346S,L452R,D614G,Q677H,A899S] (consensus) C.36.3 59 4 6.8% 1 [S12F,S13I,H69-,V70-,W152R,R346S,L452R,D614G,Q677H,A899S] C.36.3 59 4 6.8% 1 [S12F,R21I,H69-,V70-,W152R,R346S,L452R,D614G,Q677H,A899S] C.36.3 59 4 6.8% 1 [S12F,H69-,V70-,W152R,R346S,L452R,D614G,Q677H,A899S,D1260H] C.36.3 59 2 3.4% 1 [S12F,H69-,V70-,W152R,R346S,L452R,T478R,D614G,Q677H,A899S] AY.11 58 40 69.0% 0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus) AY.11 58 4 6.9% 1 [L5F,T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] AY.11 58 3 5.2% 3 [T19R,E156G,F157-,R158-,T478K,D614G,P681R,D950N] AY.11 58 3 5.2% 6 [T19R,T29A,E156G,F157-,R158-,T250I,T299I,L452R,T478K,Q613H,D614G,P681R,D950N] AY.11 58 2 3.4% 2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] P.1.4 57 38 66.7% 0 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,N679K,T1027I,V1176F] (consensus) P.1.4 57 11 19.3% 1 [L18F,T20N,P26S,D138Y,R190S,R246G,K417T,E484K,N501Y,D614G,H655Y,N679K,T1027I,V1176F] P.1.4 57 5 8.8% 2 [L18F,T20N,P26S,D138Y,R190S,R246G,T284I,K417T,E484K,N501Y,D614G,H655Y,N679K,T1027I,V1176F] P.1.4 57 1 1.8% 3 [L18F,T20N,P26S,D138Y,R246G,T284I,K417T,E484K,N501Y,D614G,H655Y,N679K,T1027I,V1176F] P.1.4 57 1 1.8% 1 [L5F,L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,N679K,T1027I,V1176F] P.1.8 56 40 71.4% 0 [L18F,T20N,P26S,D138Y,R190S,K417T,T470N,E484K,N501Y,D614G,H655Y,P681R,T1027I,V1176F,C1235F] (consensus) P.1.8 56 2 3.6% 1 [L18F,T20N,P26S,D138Y,R190S,P330S,K417T,T470N,E484K,N501Y,D614G,H655Y,P681R,T1027I,V1176F,C1235F] P.1.8 56 2 3.6% 1 [L5F,L18F,T20N,P26S,D138Y,R190S,K417T,T470N,E484K,N501Y,D614G,H655Y,P681R,T1027I,V1176F,C1235F] P.1.8 56 2 3.6% 1 [L18F,T20N,P26S,D138Y,R190S,K417T,T470N,E484K,N501Y,T604N,D614G,H655Y,P681R,T1027I,V1176F,C1235F] P.1.8 56 1 1.8% 2 [L18F,T20N,P26S,D138Y,I203V,K417T,T470N,E484K,N501Y,D614G,H655Y,P681R,T1027I,V1176F,C1235F] Q.6 50 40 80.0% 0 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] (consensus) Q.6 50 3 6.0% 1 [H69-,V70-,Y144-,R214L,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] Q.6 50 1 2.0% 1 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S939F,S982A,D1118H] Q.6 50 1 2.0% 1 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H,M1229I] Q.6 50 1 2.0% 1 [H69-,V70-,Y144-,N501Y,A570D,D614G,E654Q,P681H,T716I,S982A,D1118H] B.1.1.519 48 32 66.7% 0 [T478K,D614G,P681H,T732A] (consensus) B.1.1.519 48 7 14.6% 1 [T478K,D614G,P681H,T732A,E1258D] B.1.1.519 48 2 4.2% 2 [T478K,D614G,P681H,T732A,E1258D,D1259H] B.1.1.519 48 1 2.1% 3 [T478K,D614G,S640F,P681H,T732A,E1258D,D1259H] B.1.1.519 48 1 2.1% 1 [T478K,D614G,P681H,T732A,E1182D] Q.1 44 27 61.4% 0 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] (consensus) Q.1 44 5 11.4% 1 [L5F,H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] Q.1 44 3 6.8% 2 [H69-,V70-,S98F,Y144-,T259P,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] Q.1 44 2 4.5% 1 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,A688V,T716I,S982A,D1118H] Q.1 44 1 2.3% 1 [H69-,V70-,Y144-,P384L,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] P.1.9 43 28 65.1% 0 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,Q675H,T1027I,V1176F] (consensus) P.1.9 43 8 18.6% 2 [L18F,T20N,P26S,H69-,V70-,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,Q675H,T1027I,V1176F] P.1.9 43 1 2.3% 3 [L18F,T20N,P26S,H69-,V70-,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,Q675H,S939F,T1027I,V1176F] P.1.9 43 1 2.3% 1 [L18F,T20N,P26S,D138Y,R190S,D215A,K417T,E484K,N501Y,D614G,H655Y,Q675H,T1027I,V1176F] P.1.9 43 1 2.3% 2 [L18F,T20N,P26S,R190S,R214H,K417T,E484K,N501Y,D614G,H655Y,Q675H,T1027I,V1176F] B.1.351.2 41 17 41.5% 0 [L18F,D80A,D215G,L242-,A243-,L244-,K417N,E484K,N501Y,D614G,A701V] (consensus) B.1.351.2 41 7 17.1% 2 [L18F,G75V,D80A,D215G,L242-,A243-,L244-,K417N,E484K,N501Y,D614G,A701V,I934V] B.1.351.2 41 5 12.2% 1 [L18F,D80A,D215G,L242-,A243-,L244-,K417N,E484K,N501Y,D614G,A701V,I934V] B.1.351.2 41 2 4.9% 3 [L18F,G75V,D80A,D215G,L242-,A243-,L244-,K417N,E484K,N501Y,D614G,A701V,I934V,C1243F] B.1.351.2 41 2 4.9% 1 [L18F,D80A,D215G,L242-,A243-,L244-,K417N,V483F,E484K,N501Y,D614G,A701V] AY.17 40 18 45.0% 0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.17 40 8 20.0% 1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,V622F,P681R,D950N] AY.17 40 3 7.5% 2 [T19R,T95N,G142D,E156G,F157-,R158-,L452R,T478K,D614G,V622F,P681R,D950N] AY.17 40 3 7.5% 1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812L,D950N] AY.17 40 2 5.0% 2 [T19R,G142D,E156G,F157-,R158-,T376I,L452R,T478K,D614G,V622F,P681R,D950N] Q.8 40 25 62.5% 0 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] (consensus) Q.8 40 2 5.0% 1 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,A831S,S982A,D1118H] Q.8 40 2 5.0% 1 [H69-,V70-,T95I,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] Q.8 40 2 5.0% 1 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H,D1163Y] Q.8 40 1 2.5% 2 [H69-,V70-,D80G,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H,E1202Q] B.1.631 39 10 25.6% 0 [L18R,T95I,R158S,L176F,N440K,L452M,D614G,P681H,A688V,S735A,T1027I] (consensus) B.1.631 39 9 23.1% 1 [L18R,T95I,R158S,N440K,L452M,D614G,P681H,A688V,S735A,T1027I] B.1.631 39 7 17.9% 1 [L18R,T95I,R158S,L176F,A411S,N440K,L452M,D614G,P681H,A688V,S735A,T1027I] B.1.631 39 3 7.7% 2 [L18R,T95I,R158S,T307I,N440K,L452M,D614G,P681H,A688V,S735A,T1027I] B.1.631 39 2 5.1% 2 [L18R,I68T,T95I,R158S,L176F,N440K,L452M,D614G,P681H,A688V,S735A,T1027I,G1124V] B.1.632 36 30 83.3% 0 [T29I,F32L,M153T,F157S,G252V,S477N,E484K,D614G,H655Y,P681H,D936H,D1260H] (consensus) B.1.632 36 2 5.6% 1 [T29I,F32L,M153T,F157S,G252V,S477N,E484K,D614G,H655Y,P681H,D936H,L1063F,D1260H] B.1.632 36 1 2.8% 1 [T29I,F32L,G35V,M153T,F157S,G252V,S477N,E484K,D614G,H655Y,P681H,D936H,D1260H] B.1.632 36 1 2.8% 1 [P26S,T29I,F32L,M153T,F157S,G252V,S477N,E484K,D614G,H655Y,P681H,D936H,D1260H] B.1.632 36 1 2.8% 1 [T29I,F32L,S98F,M153T,F157S,G252V,S477N,E484K,D614G,H655Y,P681H,D936H,D1260H] B.1.525 35 22 62.9% 0 [Q52R,A67V,H69-,V70-,Y144-,E484K,D614G,Q677H,F888L] (consensus) B.1.525 35 2 5.7% 1 [Q52R,A67V,H69-,V70-,Y144-,D215Y,E484K,D614G,Q677H,F888L] B.1.525 35 2 5.7% 1 [Q52R,A67V,H69-,V70-,K113N,Y144-,E484K,D614G,Q677H,F888L] B.1.525 35 1 2.9% 1 [Q52R,A67V,H69-,V70-,Y144-,Q218H,E484K,D614G,Q677H,F888L] B.1.525 35 1 2.9% 2 [L5F,A67V,H69-,V70-,Y144-,E484K,D614G,Q677H,F888L] B.1.466.2 33 19 57.6% 0 [N439K,D614G,P681R] (consensus) B.1.466.2 33 2 6.1% 1 [T299I,N439K,D614G,P681R] B.1.466.2 33 2 6.1% 1 [T240P,N439K,D614G,P681R] B.1.466.2 33 1 3.0% 1 [S98F,N439K,D614G,P681R] B.1.466.2 33 1 3.0% 3 [Q239K,T240N,N439K,T478K,D614G,P681R] A.2.5.2 31 20 64.5% 0 [L141-,G142Y,V143-,Y144-,+214AAG,D215Y,L452R,D614G] (consensus) A.2.5.2 31 3 9.7% 4 [L141-,G142Y,V143-,Y144-,L452R,D614G] A.2.5.2 31 2 6.5% 1 [L141-,G142Y,V143-,Y144-,R214L,+214AAG,D215Y,L452R,D614G] A.2.5.2 31 2 6.5% 1 [L141-,G142Y,V143-,Y144-,+214AAG,D215Y,L452R,D614G,A845V] A.2.5.2 31 1 3.2% 2 [L18F,L141-,G142Y,V143-,Y144-,+214AAG,D215Y,L452R,D614G,C1250F] AZ.5 30 20 66.7% 0 [D80Y,T95I,Y144-,W258L,E484K,D614G,P681H,D796H] (consensus) AZ.5 30 5 16.7% 1 [D80Y,T95I,Y144-,W258L,E484K,D614G,P681H,D796H,T859I] AZ.5 30 4 13.3% 2 [D80Y,T95I,Y144-,A243S,W258L,E484K,D614G,P681H,D796H,T859I] AZ.5 30 1 3.3% 4 [D80Y,P85-,F86-,T95I,Y144-,A243S,W258L,E484K,D614G,P681H,D796H,T859I] B.1.177 27 21 77.8% 0 [] (consensus) B.1.177 27 2 7.4% 7 [L18F,A222V,R246N,S247-,Y248-,P330S,D614G] B.1.177 27 1 3.7% 3 [L18F,A222V,D614G] B.1.177 27 1 3.7% 4 [T29N,A222V,P272L,D614G] B.1.177 27 1 3.7% 4 [L18F,A222V,P330S,D614G] B.1.241 25 21 84.0% 0 [D253G,E484K,N501Y,D614G] (consensus) B.1.241 25 2 8.0% 2 [D253G,D614G] B.1.241 25 1 4.0% 11 [W64R,S98F,E156G,F157-,R158-,I210-,N394S,T478K,E484K,D614G,T859N] B.1.241 25 1 4.0% 7 [T19R,T95I,D253G,L452R,T478K,D614G,P681R] P.1.3 25 9 36.0% 0 [L18F,T20N,P26S,D138-,P139Y,F140-,L141-,G142-,V143-,Y144-,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F] (consensus) P.1.3 25 7 28.0% 3 [L18F,T20N,P26S,D138Y,L141-,G142-,V143-,Y144-,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F] P.1.3 25 4 16.0% 1 [L18F,T20N,P26S,D138-,P139Y,F140-,L141-,G142-,V143-,Y144-,R190S,K417T,E484K,N501Y,N603I,D614G,H655Y,T1027I,V1176F] P.1.3 25 1 4.0% 4 [L18F,T20N,P26S,D138Y,L141-,G142-,V143-,Y144-,R190S,K417T,E484K,N501Y,D614G,S640F,H655Y,T1027I,V1176F] P.1.3 25 1 4.0% 4 [L18F,T20N,P26S,D138Y,L141-,G142-,V143-,Y144-,R190S,K417T,E484K,N501Y,D614G,H655Y,A688V,T1027I,V1176F] B.1.1.317 23 9 39.1% 0 [D138Y,S477N,A522S,D614G,Q675R,A845S] (consensus) B.1.1.317 23 6 26.1% 5 [D614G] B.1.1.317 23 4 17.4% 2 [D88E,S477N,A522S,D614G,Q675R,A845S] B.1.1.317 23 4 17.4% 6 [T19R,D138Y,L244S,A522S,D614G,P681R,A845S,D950N] B.1.459 22 14 63.6% 0 [L452R,T478K,D614G] (consensus) B.1.459 22 2 9.1% 2 [D614G] B.1.459 22 2 9.1% 6 [H69S,E156G,F157-,R158-,T478K,D614G,D950N] B.1.459 22 2 9.1% 4 [T19R,L452R,T478K,E484K,N501Y,D614G,D950N] B.1.459 22 2 9.1% 6 [T19R,A222V,N501Y,D614G,D950N] B.1.351.3 21 15 71.4% 0 [L18F,D80A,D215G,L242-,A243-,L244-,K417N,E484K,N501Y,D614G,A701V] (consensus) B.1.351.3 21 3 14.3% 1 [L18F,D80A,D138N,D215G,L242-,A243-,L244-,K417N,E484K,N501Y,D614G,A701V] B.1.351.3 21 2 9.5% 2 [D80A,L242-,A243-,L244-,K417N,E484K,N501Y,D614G,A701V] B.1.351.3 21 1 4.8% 1 [L18F,D80A,D215G,L242-,A243-,L244-,K417N,E484K,N501Y,N556K,D614G,A701V] B.1.1.205 20 16 80.0% 0 [H69-,V70-,Y144-,N501Y,D614G,T716I] (consensus) B.1.1.205 20 3 15.0% 3 [N501Y,D614G,T716I] B.1.1.205 20 1 5.0% 4 [N501Y,D614G,P681H,T716I] B.1.395 19 19 100.0% 0 [D614G] (consensus) B.1.630 16 9 56.2% 0 [P9L,C136F,Y144-,A222V,A243-,L244-,L452R,T478R,E484Q,D614G,H655Y,D950N] (consensus) B.1.630 16 1 6.2% 11 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,E484Q,D614G,H655Y,D950N] B.1.630 16 1 6.2% 3 [P9L,C136F,Y144-,A222V,A243-,L244-,G413V,L452R,T478R,E484Q,V551F,D614G,H655Y,D950N,V1104L] B.1.630 16 1 6.2% 1 [P9L,C136F,Y144-,A222V,A243-,L244-,L452R,T478R,E484Q,D614G,H655Y,Q779H,D950N] B.1.630 16 1 6.2% 1 [P9L,C136F,Y144-,A222V,A243-,L244-,V367L,L452R,T478R,E484Q,D614G,H655Y,D950N] B.1.305 14 14 100.0% 0 [A67V,H69S,E484K,D614G,F888L] (consensus) B 13 8 61.5% 0 [] (consensus) B 13 2 15.4% 2 [V367F,E990A] B 13 1 7.7% 2 [N501Y,D614G] B 13 1 7.7% 4 [G142D,D614G,D950N,V1104L] B 13 1 7.7% 6 [R190S,L452R,S477N,E484K,N501Y,D614G] C.36.3.1 13 8 61.5% 0 [S12F,H69-,V70-,W152R,R346S,L452R,S477N,D614G,Q677H,A899S] (consensus) C.36.3.1 13 4 30.8% 2 [S12F,H69-,V70-,W152R,G181V,R346S,L452R,S477N,D614G,Q677H,A845S,A899S] C.36.3.1 13 1 7.7% 1 [S12F,H69-,V70-,W152R,R346S,L452R,S477N,D614G,Q677H,A845S,A899S] P.1.11 13 5 38.5% 0 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,P681R,T1027I,V1176F] (consensus) P.1.11 13 3 23.1% 1 [S12F,L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,P681R,T1027I,V1176F] P.1.11 13 1 7.7% 1 [L18F,T20N,P26S,D138Y,R190S,K417T,T478I,E484K,N501Y,D614G,H655Y,P681R,T1027I,V1176F] P.1.11 13 1 7.7% 1 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,P681R,I834T,T1027I,V1176F] P.1.11 13 1 7.7% 1 [L5F,L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,P681R,T1027I,V1176F] B.1.577 12 7 58.3% 0 [N501Y,D614G] (consensus) B.1.577 12 4 33.3% 1 [D614G] B.1.577 12 1 8.3% 2 [D614G,G667S] B.1.626 12 9 75.0% 0 [L18F,A67V,I68-,H69-,V70-,G257S,E484K,F490S,N501T,D614G,T859N] (consensus) B.1.626 12 2 16.7% 1 [L18F,A67V,I68-,H69-,V70-,E484K,F490S,N501T,D614G,T859N] B.1.626 12 1 8.3% 4 [L18F,G257S,E484K,F490S,N501T,D614G,T859N] Q.7 12 4 33.3% 0 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] (consensus) Q.7 12 2 16.7% 8 [H69-,V70-,Y144-,A163V,M177T,P251L,L303F,V308L,Y449H,N460K,G485V,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] Q.7 12 2 16.7% 8 [H69-,V70-,G142V,Y144-,A163V,M177T,L303F,V308L,Y449H,N460K,G485V,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] Q.7 12 2 16.7% 1 [H69-,V70-,Y144-,F490L,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] Q.7 12 1 8.3% 2 [H69-,V70-,Y144-,V483F,N501Y,A570D,D614G,P681H,T716M,S982A,D1118H] B.1.438 12 6 50.0% 0 [T240I,E309Q,D614G,Q675H] B.1.438 12 4 33.3% 1 [T240I,D614G,Q675H] (consensus) B.1.438 12 2 16.7% 2 [D614G,Q675H] Q.4 11 5 45.5% 0 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] (consensus) Q.4 11 2 18.2% 1 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681R,T716I,S982A,D1118H] Q.4 11 2 18.2% 1 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H,K1191N] Q.4 11 1 9.1% 3 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681R,T716I,A958S,S982A,D1118H,G1219V] Q.4 11 1 9.1% 2 [H69-,V70-,Y144-,N501Y,A570D,D614G,T618K,P681R,T716I,S982A,D1118H] A.29 11 11 100.0% 0 [Y449H,N501Y,F565L,H655Y] (consensus) B.1.575 10 1 10.0% 0 [S13I,P26L,W152C,L452R,D614G] B.1.575 10 1 10.0% 13 [T19R,E156G,F157-,R158-,T572I,D614G,S640F,P681R,T791K,A846S] B.1.575 10 1 10.0% 10 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R] B.1.575 10 1 10.0% 12 [H69-,V70-,Y144-,E156G,F157-,R158-,L452R,T478K,N501Y,D614G,P681R] B.1.575 10 1 10.0% 9 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R] AZ.4 10 10 100.0% 0 [T95I,Y144-,E484K,D614G,P681H,D796H] (consensus) B.1.1.189 9 4 44.4% 0 [L18F,F157S,G446V,S477N,D614G,S939F] B.1.1.189 9 1 11.1% 7 [D614G,E654Q,P812S] B.1.1.189 9 1 11.1% 12 [Y144-,E156G,F157-,R158-,L452R,T478K,N501Y,D614G,P681R] B.1.1.189 9 1 11.1% 9 [H69-,V70-,Y144-,D614G,P681H] B.1.1.189 9 1 11.1% 4 [D614G,S939F] (consensus) B.1.1.523 9 7 77.8% 0 [E156V,F157-,R158-,V159-,F306L,E484K,S494P,D614G,E780A,D839V,T1027I] (consensus) B.1.1.523 9 1 11.1% 1 [E156V,F157-,R158-,V159-,N211K,F306L,E484K,S494P,D614G,E780A,D839V,T1027I] B.1.1.523 9 1 11.1% 1 [E156V,F157-,R158-,V159-,F306L,E484K,S494P,D614G,D839V,T1027I] B.1.627 8 2 25.0% 0 [L18R,T95I,R158S,L176F,N440K,L452M,D614G,P681H,A688V,S735A,T1027I] B.1.627 8 1 12.5% 8 [W64R,D614G,P681H,A688V,S735A,T1027I,D1163Y] B.1.627 8 1 12.5% 9 [W64R,M153T,D614G,P681H,A688V,S735A,T1027I,F1052Y] B.1.627 8 1 12.5% 11 [W64R,M153T,D614G,P681H,A688V,S735A,P809L,T1027I,F1052Y,D1146H] B.1.627 8 1 12.5% 10 [W64R,M153T,F490L,D614G,P681H,A688V,S735A,T1027I,F1052Y] AZ.3 8 6 75.0% 0 [T95I,Y144-,E484K,D614G,P681H,D796H] (consensus) AZ.3 8 2 25.0% 1 [T95I,Y144-,A222V,E484K,D614G,P681H,D796H] AY.18 8 7 87.5% 0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus) AY.18 8 1 12.5% 3 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,T859I,D950N] B.1.634 8 5 62.5% 0 [L18R,H69-,V70-,T95I,R158S,N440K,E484K,D614G,A688V,N764K] (consensus) B.1.634 8 1 12.5% 1 [L18R,H69-,V70-,G75V,T95I,R158S,N440K,E484K,D614G,A688V,N764K] B.1.634 8 1 12.5% 2 [L18R,H69-,V70-,T95I,R158S,E484K,D614G,A688V,N764K,I834V] B.1.634 8 1 12.5% 1 [L18R,H69-,V70-,T95I,R158S,N440K,E484K,D614G,A688V,N764K,I834V] R.1 8 4 50.0% 0 [A67V,W152L,E484K,D614G,G769V] (consensus) R.1 8 4 50.0% 2 [W152L,E484K,D614G,G769V,S939F] B.1.415.1 8 8 100.0% 0 [H69-,V70-,L242-,R246T,R346K,E484K,N501T,D614G,P681H,T859N,S982L] (consensus) B.1.1.194 7 4 57.1% 0 [S477N,N501Y] (consensus) B.1.1.194 7 2 28.6% 2 [] B.1.1.194 7 1 14.3% 3 [D1118H] C.39 7 6 85.7% 0 [P9L,Y144-,Y145C,R190K,L452Q,P479S,D614G] (consensus) C.39 7 1 14.3% 1 [P9L,Y144-,Y145C,R190K,P330S,L452Q,P479S,D614G] A.2.5.3 7 2 28.6% 0 [L141-,G142Y,V143-,Y144-,+214AAG,D215Y,L452R,S477N,D614G] (consensus) A.2.5.3 7 1 14.3% 1 [L141-,G142Y,V143-,Y144-,+214AAG,D215Y,L452R,S477N,Y508H,D614G] A.2.5.3 7 1 14.3% 5 [L141-,G142Y,V143-,Y144-,L452R,S477N,D614G,D1199N] A.2.5.3 7 1 14.3% 2 [L141-,G142Y,V143-,Y144-,+214AAG,D215Y,L452R,S477N,D614G,V622F,V1122L] A.2.5.3 7 1 14.3% 6 [L141-,G142Y,V143-,Y144-,D253G,L452R,S477N,D614G,A1078S] B.1.1.419 7 6 85.7% 0 [F157S,N501T,D614G,N679H] (consensus) B.1.1.419 7 1 14.3% 1 [H49Y,F157S,N501T,D614G,N679H] B.1.1.28 6 5 83.3% 0 [D614G,V1176F] (consensus) B.1.1.28 6 1 16.7% 8 [T19R,E156G,F157-,R158-,K417T,L452R,T478K,D614G,H655Y,V1176F] P.1.6 6 5 83.3% 0 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,P681H,T1027I,V1176F] (consensus) P.1.6 6 1 16.7% 1 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,P681H,Q954L,T1027I,V1176F] C.1.2 6 2 33.3% 0 [P9L,P25L,C136F,Y144-,R190S,D215G,A243-,L244-,Y449H,E484K,N501Y,L585F,D614G,H655Y,N679K,T716I,T859N] C.1.2 6 1 16.7% 3 [P9L,G75V,C136F,Y144-,R190S,D215G,A243-,L244-,Y449H,E484K,N501Y,D614G,H655Y,N679K,T716I,T859N] C.1.2 6 1 16.7% 2 [P9L,C136F,Y144-,R190S,D215G,A243-,L244-,Y449H,E484K,N501Y,D614G,H655Y,N679K,T716I,T859N] C.1.2 6 1 16.7% 4 [P9L,P25L,C136F,Y144-,W152R,R190S,D215G,A243-,L244-,Y449H,T478K,E484K,N501Y,D614G,H655Y,N679K,T716I,T859N,A879T] C.1.2 6 1 16.7% 5 [P9L,P25L,C136F,Y144-,R190S,D215G,A243-,L244-,N440K,Y449H,E484K,N501Y,D614G,H655Y,P681H,T716I,T859N,D936H] B.1.1.1 5 4 80.0% 0 [K77T,W152R,G446S,D614G] (consensus) B.1.1.1 5 1 20.0% 16 [G75V,T76I,R246N,S247-,Y248-,L249-,T250-,P251-,G252-,D253-,L452Q,F490S,D614G,T859N] B.1.625 5 2 40.0% 0 [D614G,P681R,T716I,T734A,T739A,D950N,V1228L,D1257G] B.1.625 5 1 20.0% 13 [H69-,V70-,T95I,Y144-,F157L,H245Y,N440K,E484K,D614G,D950N,V1228L] B.1.625 5 1 20.0% 13 [H69-,V70-,T95I,Y144-,F157L,N440K,E484K,D614G,V687I,D950N,V1228L] B.1.625 5 1 20.0% 12 [H69-,V70-,T95I,Y144-,F157L,N440K,E484K,D614G,D950N,V1228L] (consensus) B.1.177.86 5 1 20.0% 0 [L18F,D80A,L242-,A243-,L244-,E484K,N501Y,D614G] (consensus) B.1.177.86 5 1 20.0% 1 [L18F,D80A,L242-,A243-,L244-,K417N,E484K,N501Y,D614G] B.1.177.86 5 1 20.0% 1 [L18F,D80A,L242-,A243-,L244-,E484K,N501Y,D614G,D1260Y] B.1.177.86 5 1 20.0% 1 [L18F,D80A,L242-,A243-,L244-,E484K,D614G] B.1.177.86 5 1 20.0% 1 [L18F,G75S,D80A,L242-,A243-,L244-,E484K,N501Y,D614G] B.1.258 4 1 25.0% 0 [G72R,Y144-,F157S,G252D,N439K,E484A,F490S,D614G,A688V,T859I] B.1.258 4 1 25.0% 14 [T22I,H69-,V70-,G75V,N439K,A522V,D614G,G1267E] B.1.258 4 1 25.0% 13 [H69-,V70-,Y144-,N439K,V483A,D614G,M740T,E780K,K1149M] B.1.258 4 1 25.0% 14 [Q14-,C15-,V16-,H69-,V70-,Y144-,N439K,T573I,D614G,A1020V] B.1.429 4 2 50.0% 0 [S13I,W152C,L452R,D614G] (consensus) B.1.429 4 1 25.0% 1 [S13I,W152C,L452R,D614G,E1258D] B.1.429 4 1 25.0% 1 [W152C,L452R,D614G] B.1.587 4 3 75.0% 0 [D178G,D614G] (consensus) B.1.587 4 1 25.0% 3 [S13I,C136F,D178G,A222V,D614G] B.1.23 4 4 100.0% 0 [W152R,L452R,D614G,A899S] (consensus) B.1.240 3 1 33.3% 0 [D614G] (consensus) B.1.240 3 1 33.3% 4 [H66N,Y144-,N501Y,D614G,N764K] B.1.240 3 1 33.3% 1 [L54F,D614G] A.27 3 3 100.0% 0 [L18F,E156G,F157-,R158-,L452R,N501Y,A653V,H655Y,G1219V] (consensus) C.36 3 3 100.0% 0 [S12F,L452R,D614G,Q677H] (consensus) B.1.1.10 3 2 66.7% 0 [L452R,T478K,D614G,P681R] (consensus) B.1.1.10 3 1 33.3% 4 [T19R,D614G,P681R,D950N] Q.5 3 3 100.0% 0 [H69-,V70-,D138H,Y144-,F490S,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] (consensus) P.3 3 1 33.3% 0 [L141-,G142Y,V143-,Y144-,A243-,L244-,Y265C,E484K,N501Y,T573I,D614G,P681H,E1092K,H1101Y,V1176F] P.3 3 1 33.3% 3 [P9L,L141-,G142Y,V143-,Y144-,A243-,L244-,Y265C,E484K,N501Y,D614G,P681H,A942S,E1092K,H1101Y,V1176F] P.3 3 1 33.3% 7 [P9L,E132Q,L141-,G142Y,V143-,Y144-,K417N,E484K,N501Y,D614G,P681H,E1092K,H1101Y,V1176F] B.1.369 2 2 100.0% 0 [D614G] (consensus) B.1.582 2 2 100.0% 0 [D614G] (consensus) B.1.517 2 2 100.0% 0 [W64C,Q493K,N501T,Q613H,D614G,T1027I] (consensus) B.1.1.348 2 2 100.0% 0 [D614G,G1167A] (consensus) B.1.221 2 1 50.0% 0 [S477N,D614G] (consensus) B.1.221 2 1 50.0% 2 [S98F,D614G] B.1.214.3 2 1 50.0% 0 [L242-,A243-,L244-,E484K,N501Y,D614G] (consensus) B.1.214.3 2 1 50.0% 5 [E484K,D614G,D1118H] P.1.10.1 2 2 100.0% 0 [L18F,T20N,P26S,H69-,V70-,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F] (consensus) Q.2 2 1 50.0% 0 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] (consensus) Q.2 2 1 50.0% 1 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H,T1238I] C.38 2 1 50.0% 0 [I210T,L452R,T478K,D614G,D936N,S939F] (consensus) C.38 2 1 50.0% 13 [G75V,T76I,D138H,N501Y,D614G,P681H,T716I,T859N,D1118H] B.1.1.277 2 2 100.0% 0 [L5F,D614G,A626S] (consensus) B.1.1.413 2 2 100.0% 0 [D138Y,D253Y,S477N,D614G] (consensus) B.1.1.372 2 1 50.0% 0 [N501Y,D614G,A899S] (consensus) B.1.1.372 2 1 50.0% 11 [P9L,C136F,Y144-,R190S,D215G,A243-,L244-,D614G,H655Y,T716I] B.1.1.222 2 2 100.0% 0 [D614G,T732A,T747I] (consensus) B.1.498 2 1 50.0% 0 [P9L,Y144C,D614G] (consensus) B.1.498 2 1 50.0% 1 [P9L,Y144C,N501Y,D614G] B.30 1 1 100.0% 0 [] (consensus) B.1.1.218 1 1 100.0% 0 [D614G] (consensus) B.1.362 1 1 100.0% 0 [D614G] (consensus) B.1.189 1 1 100.0% 0 [D614G] (consensus) B.1.609 1 1 100.0% 0 [D614G] (consensus) B.1.1.291 1 1 100.0% 0 [D614G] (consensus) B.1.495 1 1 100.0% 0 [D614G] (consensus) B.1.1.398 1 1 100.0% 0 [D614G] (consensus) B.1.110 1 1 100.0% 0 [D614G] (consensus) B.1.134 1 1 100.0% 0 [T76I,D614G] (consensus) AH.3 1 1 100.0% 0 [V3G,L5F,A352S,D614G,G842S] (consensus) A 1 1 100.0% 0 [L141-,G142Y,V143-,Y144-,W152R,+214AAG,D215Y,D614G] (consensus) A.2.5.1 1 1 100.0% 0 [S98F,L141-,G142Y,V143-,Y144-,A348S,L452R,D614G] (consensus) B.1.629 1 1 100.0% 0 [G142D,K182R,L452R,T478K,D614G,P681H,D796Y,C1235F] (consensus) B.1.575.2 1 1 100.0% 0 [R102G,E484K,S494P,D614G,P681H,T716I] (consensus) B.1.470 1 1 100.0% 0 [L5F,S12F,D614G,V915I] (consensus) P.5 1 1 100.0% 0 [F2L,Q14K,T95I,V143-,Y144F,E484Q,N501T,D614G,D950N,V1176F] (consensus) B.1.36.22 1 1 100.0% 0 [G181V,D614G] (consensus) B.1.427 1 1 100.0% 0 [S13I,P26L,W152C,L452R,D614G] (consensus) B.1.177.33 1 1 100.0% 0 [A67V,A222V,A262S,P272L,D614G] (consensus) AZ.1 1 1 100.0% 0 [T95I,Y144-,E484K,D614G,P681H,D796H] (consensus) B.1.617.1 1 1 100.0% 0 [T95I,G142D,E154K,L452R,E484Q,D614G,P681R,Q1071H] (consensus) B.1.1.524 1 1 100.0% 0 [T19R,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R,D950N] (consensus) B.1.633 1 1 100.0% 0 [L5F,N17D,T95I,+143T,Y144S,Y145N,R346K,L452R,T478K,D614G,P681R,L938F,D950N,G1219C] (consensus) P.2 1 1 100.0% 0 [E484K,D614G,V1094I,D1118Y,V1176F] (consensus) P.1.10.2 1 1 100.0% 0 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F] (consensus) P.1.5 1 1 100.0% 0 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,N679K,T1027I,V1176F] (consensus) B.1.561 1 1 100.0% 0 [D138Y,D614G] (consensus) P.4 1 1 100.0% 0 [G142V,N164K,Q173K,L452R,D614G,S704L,I720V,V1176F] (consensus) B.1.1.153 1 1 100.0% 0 [D614G] (consensus) B.1.1.219 1 1 100.0% 0 [L5F,V62I,G142D,V143-,Y144-,Y145-,F157L,F486L,N501T,D614G] (consensus) B.1.564 1 1 100.0% 0 [T95I,G142D,Y144-,W152G,N440K,T478K,E484K,Q493E,N501Y,D614G,P681H,A899S,D936N,E1144A] (consensus) B.1.177.75 1 1 100.0% 0 [H69-,V70-,A222V,K417T,S477N,S605T,D614G,L828F,A879T,V1176F] (consensus) B.1.324 1 1 100.0% 0 [H49Y,T95I,G142V,V143D,Y144-,Y145-,N148K,E324A,E484K,D614G,Q675R,D950N] (consensus) AT.1 1 1 100.0% 0 [P9L,C136-,N137Y,D138-,P139-,F140-,L141-,G142-,V143-,Y144-,D215G,H245P,E484K,D614G,N679K,+679GIAL,E780K] (consensus) B.1.438.1 1 1 100.0% 0 [D614G,Q675H] (consensus) B.1.349 1 1 100.0% 0 [Y144-,H245Y,D614G] (consensus) B.1.149 1 1 100.0% 0 [P9L,Y144C,D614G,N955H] (consensus) B.1.232 1 1 100.0% 0 [F306L,N501Y,D614G] (consensus) B.1.110.3 1 1 100.0% 0 [D614G] (consensus) B.1.1.61 1 1 100.0% 0 [D614G] (consensus) B.1.623 1 1 100.0% 0 [E156G,F157-,R158-,D614G,P681H,T716I] (consensus) B.1.239 1 1 100.0% 0 [D614G,A845S] (consensus) B.1.1.437 1 1 100.0% 0 [D614G] (consensus) B.1.177.76 1 1 100.0% 0 [T95I,A222V,D614G,S698L] (consensus) B.1.400 1 1 100.0% 0 [D614G] (consensus)
last modified: Sun Aug 29 01:25 2021
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Questions or comments? Contact us at seq-info@lanl.gov.
Questions or comments? Contact us at seq-info@lanl.gov.
