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Most common spike forms based on Pango lineage designations


Last update: Jan 20, 2022


PANGO Lineages

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 2021-11-21 to 2022-01-14.

Pango      Lineage   Form   Form
Lineage      Count  Count    Pct  HD [Spike form as mutation string]
AY.4        111557  55937  50.1%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.4        111557   2659   2.4%   1 [T19R,T95I,D138H,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.4        111557   2658   2.4%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,L1141F] 
AY.4        111557   1521   1.4%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1078S] 
AY.4        111557   1459   1.3%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 


BA.1         57789  24233  41.9%   0 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,S371L,S373P,S375F,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] (consensus)
BA.1         57789  16126  27.9%   1 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,R346K,S371L,S373P,S375F,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] 
BA.1         57789   2524   4.4%   5 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211I,L212-,G339D,S371L,S373P,S375F,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] 
BA.1         57789   2120   3.7%   1 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,S371L,S373P,S375F,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,A701V,N764K,D796Y,N856K,Q954H,N969K,L981F] 
BA.1         57789    911   1.6%   5 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,G339D,S371L,S373P,S375F,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] 

AY.43        47446  24621  51.9%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.43        47446   3376   7.1%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.43        47446    591   1.2%   1 [V6F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.43        47446    444   0.9%   1 [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.43        47446    347   0.7%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S813I,D950N] 

AY.103       43231  24824  57.4%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.103       43231   1158   2.7%   1 [T19R,D80Y,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.103       43231    839   1.9%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.103       43231    743   1.7%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N] 
AY.103       43231    394   0.9%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.4.2       32328  20692  64.0%   0 [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.4.2       32328    846   2.6%   1 [T19R,V36F,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.4.2       32328    602   1.9%   1 [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,H1083Y] 
AY.4.2       32328    513   1.6%   1 [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,Q414K,L452R,T478K,D614G,P681R,D950N] 
AY.4.2       32328    324   1.0%   1 [L5F,T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 

AY.122       26213   8882  33.9%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.122       26213   2719  10.4%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.122       26213    761   2.9%   2 [T19R,G142D,E156G,F157-,R158-,W258R,L452R,T478K,D614G,P681R,D950N,A1078S] 
AY.122       26213    717   2.7%   1 [T19R,G142D,E156G,F157-,R158-,T240I,L452R,T478K,D614G,P681R,D950N] 
AY.122       26213    521   2.0%   1 [T19R,G142D,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R,D950N] 

AY.44        24349  14259  58.6%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.44        24349    713   2.9%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.44        24349    221   0.9%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1101Y] 
AY.44        24349    196   0.8%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,T604I,D614G,P681R,D950N] 
AY.44        24349    193   0.8%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S939F,D950N] 

AY.3         16063   7380  45.9%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.3         16063    829   5.2%   1 [T19R,V70I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.3         16063    325   2.0%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,T1117I] 
AY.3         16063    299   1.9%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N] 
AY.3         16063    281   1.7%   1 [T19R,G142D,E156G,F157-,R158-,N354T,L452R,T478K,D614G,P681R,D950N] 

AY.25.1      15526   9664  62.2%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.25.1      15526    217   1.4%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.25.1      15526    199   1.3%   1 [T19R,V70F,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.25.1      15526    192   1.2%   1 [Q14H,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.25.1      15526    162   1.0%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N] 

AY.4.2.2     13757   7609  55.3%   0 [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] (consensus)
AY.4.2.2     13757   1044   7.6%   1 [S13T,T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] 
AY.4.2.2     13757    797   5.8%   1 [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,T299I,L452R,T478K,D614G,P681R,D950N,V1264L] 
AY.4.2.2     13757    676   4.9%   1 [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1133I,V1264L] 
AY.4.2.2     13757    582   4.2%   1 [L18F,T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] 

AY.25        13564   4997  36.8%   0 [T19R,S112L,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.25        13564   2960  21.8%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.25        13564    535   3.9%   2 [T19R,G142D,E156G,F157-,R158-,S221L,L452R,T478K,D614G,P681R,D950N] 
AY.25        13564    235   1.7%   3 [T19R,G142D,E156G,F157-,R158-,L176F,S221L,L452R,T478K,D614G,P681R,D950N] 
AY.25        13564    179   1.3%   1 [T19R,S112L,G142D,E156G,F157-,R158-,L452R,T478K,D614G,E654V,P681R,D950N] 

AY.100       12295   6257  50.9%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.100       12295    397   3.2%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.100       12295    353   2.9%   1 [T19R,T95I,G142D,E156G,F157-,R158-,T385I,L452R,T478K,D614G,P681R,D950N] 
AY.100       12295    198   1.6%   1 [T19R,P82T,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.100       12295    181   1.5%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

B.1.617.2    10220   3429  33.6%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
B.1.617.2    10220    965   9.4%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
B.1.617.2    10220    633   6.2%   2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1167V] 
B.1.617.2    10220    183   1.8%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,Q787K,D950N,G1219C] 
B.1.617.2    10220    120   1.2%   2 [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 

AY.98         9463   4556  48.1%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.98         9463    570   6.0%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1176F] 
AY.98         9463    562   5.9%   1 [T19R,E96V,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.98         9463    367   3.9%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1219V] 
AY.98         9463    317   3.3%   2 [T19R,G142D,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,D950N,D1127G] 

AY.126        8337   3002  36.0%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,I850L,D950N] (consensus)
AY.126        8337    627   7.5%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,I850L,D950N] 
AY.126        8337    290   3.5%   3 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S689I,D950N] 
AY.126        8337    265   3.2%   1 [T19R,T95I,G142D,E156G,F157-,R158-,N188S,L452R,T478K,D614G,P681R,I850L,D950N] 
AY.126        8337    221   2.7%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,I850L,D950N] 

AY.4.2.1      8183   6222  76.0%   0 [T19R,V36F,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.4.2.1      8183    279   3.4%   1 [T19R,V36F,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,A899S,D950N] 
AY.4.2.1      8183    135   1.6%   1 [T19R,V36F,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,N1187S] 
AY.4.2.1      8183    119   1.5%   1 [T19R,V36F,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,P809L,D950N] 
AY.4.2.1      8183     97   1.2%   1 [T19R,V36F,G75R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 

AY.121        6793   2665  39.2%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.121        6793    772  11.4%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.121        6793    255   3.8%   1 [T19R,T95I,G142D,E156G,F157-,R158-,E180Q,L452R,T478K,D614G,P681R,D950N] 
AY.121        6793    105   1.5%   2 [T19R,T95I,E156G,F157-,R158-,E180Q,L452R,T478K,D614G,P681R,D950N] 
AY.121        6793     68   1.0%   2 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1078S] 

AY.127        6525   2738  42.0%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.127        6525    466   7.1%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T859N,D950N] 
AY.127        6525    319   4.9%   1 [L5F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.127        6525    300   4.6%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.127        6525    177   2.7%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073N] 

AY.39         6231   3073  49.3%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.39         6231    452   7.3%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,T572I,D614G,P681R,D950N] 
AY.39         6231    203   3.3%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073N] 
AY.39         6231    147   2.4%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.39         6231    144   2.3%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,L585F,D614G,P681R,D950N] 

AY.5          5211   3007  57.7%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.5          5211    244   4.7%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N] 
AY.5          5211    204   3.9%   1 [T19R,G142D,E156G,F157-,R158-,T376I,L452R,T478K,D614G,P681R,D950N] 
AY.5          5211    197   3.8%   2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,V772I,D950N] 
AY.5          5211    113   2.2%   3 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,I770V,V772I,D950N] 

AY.119        4664   1486  31.9%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.119        4664   1098  23.5%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809S,D950N] 
AY.119        4664    112   2.4%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809S,G946R,D950N] 
AY.119        4664     84   1.8%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E484K,D614G,S673T,P681R,D950N] 
AY.119        4664     66   1.4%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1163G] 

AY.39.1       4236   1648  38.9%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.39.1       4236   1634  38.6%   1 [S12F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.39.1       4236     52   1.2%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073N] 
AY.39.1       4236     50   1.2%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,E1262D] 
AY.39.1       4236     47   1.1%   1 [T19R,T95I,G142D,E156G,F157-,R158-,V227I,L452R,T478K,D614G,P681R,D950N] 

AY.46         4125   2660  64.5%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.46         4125    159   3.9%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.46         4125    104   2.5%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,E583D,D614G,P681R,D950N] 
AY.46         4125     72   1.7%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A846S,D950N] 
AY.46         4125     64   1.6%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.98.1       4001   1853  46.3%   0 [T19R,G142D,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.98.1       4001    433  10.8%   1 [T19R,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,D950N] 
AY.98.1       4001    173   4.3%   1 [T19R,D80Y,G142D,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,D950N] 
AY.98.1       4001    129   3.2%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.98.1       4001    104   2.6%   1 [T19R,G142D,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,A942S,D950N] 

AY.46.6       3925   1626  41.4%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.46.6       3925    520  13.2%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.46.6       3925    109   2.8%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,I834V,D950N] 
AY.46.6       3925    102   2.6%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1167V] 
AY.46.6       3925     86   2.2%   1 [T19R,H69Y,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

BA.2          3556   2828  79.5%   0 [T19I,L24S,P25-,P26-,A27-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] (consensus)
BA.2          3556    560  15.7%   4 [T19I,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] 
BA.2          3556     27   0.8%   1 [T19I,L24S,P25-,P26-,A27-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] 
BA.2          3556     16   0.4%   1 [T19I,L24S,P25-,P26-,A27-,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] 
BA.2          3556      8   0.2%   1 [T19I,L24S,P25-,P26-,A27-,G142D,V213G,G339D,S371F,S373P,S375F,T376A,D405N,R408S,K417N,N440K,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,A831T,Q954H,N969K] 

AY.36         3458   2389  69.1%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] (consensus)
AY.36         3458    220   6.4%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,D950N,V1104L] 
AY.36         3458    193   5.6%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] 
AY.36         3458     55   1.6%   1 [T19R,A67V,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] 
AY.36         3458     31   0.9%   2 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,D950N,V1104L] 

AY.120        3309   1529  46.2%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.120        3309    498  15.0%   1 [T19R,T51I,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.120        3309     79   2.4%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.120        3309     76   2.3%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N] 
AY.120        3309     70   2.1%   1 [T19R,T95I,G142D,E156G,F157-,R158-,V407I,L452R,T478K,D614G,P681R,D950N] 

AY.9.2        3227   1593  49.4%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.9.2        3227    211   6.5%   1 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.9.2        3227    104   3.2%   1 [T19R,A67V,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.9.2        3227    100   3.1%   1 [T19R,G142D,E156G,F157-,R158-,D215H,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.9.2        3227     58   1.8%   2 [T19R,G142D,E156G,F157-,R158-,A222V,T250I,S255F,L452R,T478K,D614G,P681R,D950N] 

AY.4.6        2953   1789  60.6%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.4.6        2953    231   7.8%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,D950N] 
AY.4.6        2953    121   4.1%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,M1237I] 
AY.4.6        2953     71   2.4%   1 [T19R,T95I,G142D,E156G,F157-,R158-,A222S,L452R,T478K,D614G,P681R,D950N] 
AY.4.6        2953     46   1.6%   1 [T19R,P26S,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.125        2811   1294  46.0%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.125        2811    328  11.7%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.125        2811     98   3.5%   1 [T19R,T95I,G142D,E156G,F157-,R158-,G446V,L452R,T478K,D614G,P681R,D950N] 
AY.125        2811     74   2.6%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S939F,D950N] 
AY.125        2811     62   2.2%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A879S,D950N] 

AY.4.5        2523   1589  63.0%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1259Y] (consensus)
AY.4.5        2523     69   2.7%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D796G,D950N,D1259Y] 
AY.4.5        2523     42   1.7%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1259Y] 
AY.4.5        2523     39   1.5%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D796H,D950N,D1259Y] 
AY.4.5        2523     29   1.1%   1 [T19R,T33I,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1259Y] 

AY.43.6       2405   2094  87.1%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.43.6       2405     35   1.5%   1 [T19R,D80Y,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.43.6       2405     33   1.4%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,R1091H] 
AY.43.6       2405     24   1.0%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,L1063F] 
AY.43.6       2405     23   1.0%   1 [T19R,G142D,E156G,F157-,R158-,T274I,L452R,T478K,D614G,P681R,D950N] 

AY.117        2278   1355  59.5%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.117        2278     62   2.7%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1078S] 
AY.117        2278     52   2.3%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.117        2278     48   2.1%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D574Y,D614G,P681R,D950N] 
AY.117        2278     43   1.9%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1223S] 

AY.20         2263    767  33.9%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] (consensus)
AY.20         2263    298  13.2%   1 [T19R,T95I,K97E,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] 
AY.20         2263    198   8.7%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] 
AY.20         2263     54   2.4%   2 [T19R,T95I,K97E,D138H,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] 
AY.20         2263     42   1.9%   2 [T19R,T95I,K97E,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] 

AY.129        2237   1302  58.2%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.129        2237    377  16.9%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.129        2237     42   1.9%   2 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R] 
AY.129        2237     37   1.7%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N,D1163Y] 
AY.129        2237     32   1.4%   1 [P9S,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.33         2192    407  18.6%   0 [T19R,T29A,G142D,E156G,F157-,R158-,T250I,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.33         2192    348  15.9%   1 [T19R,T29A,G142D,E156G,F157-,R158-,T250I,L452R,T478K,Q613H,D614G,P681R,D950N] 
AY.33         2192    196   8.9%   2 [T19R,T29A,G142D,E156G,F157-,R158-,T250I,L452R,T478K,Q613H,D614G,P681R,D950N,E1202Q] 
AY.33         2192    105   4.8%   2 [T19R,T29A,G142D,E156G,F157-,R158-,T250I,T299I,L452R,T478K,Q613H,D614G,P681R,D950N] 
AY.33         2192     94   4.3%   2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.111        2166   1152  53.2%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.111        2166    233  10.8%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1191N] 
AY.111        2166    158   7.3%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1101Y] 
AY.111        2166     86   4.0%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.111        2166     32   1.5%   1 [T19R,T95I,G142D,E156G,F157-,R158-,T259I,L452R,T478K,D614G,P681R,D950N] 

AY.112        2137   1296  60.6%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.112        2137     44   2.1%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.112        2137     40   1.9%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D936G,D950N,P1263Q] 
AY.112        2137     26   1.2%   2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1264L] 
AY.112        2137     22   1.0%   1 [S12F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.69         2075   1019  49.1%   0 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.69         2075    425  20.5%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.69         2075    141   6.8%   1 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R] 
AY.69         2075     51   2.5%   1 [T19R,E156G,F157-,R158-,A222V,G446V,L452R,T478K,D614G,P681R,D950N] 
AY.69         2075     15   0.7%   2 [T19R,G142D,E156G,F157-,R158-,A222V,G446V,L452R,T478K,D614G,P681R,D950N] 

AY.4.2.3      1988    938  47.2%   0 [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.4.2.3      1988    427  21.5%   1 [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,L1049I] 
AY.4.2.3      1988    116   5.8%   1 [T19R,T95I,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.4.2.3      1988     21   1.1%   2 [T19R,T95I,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,L1049I] 
AY.4.2.3      1988     21   1.1%   1 [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,E554Q,D614G,P681R,D950N] 

AY.6          1938    720  37.2%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.6          1938    127   6.6%   2 [T19R,T22I,A67V,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.6          1938    116   6.0%   2 [T19R,G142D,E156G,F157-,R158-,M177I,L452R,T478K,D614G,P681R,Y837H,D950N] 
AY.6          1938     85   4.4%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N] 
AY.6          1938     57   2.9%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,E1207D] 

AY.26         1935    621  32.1%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] (consensus)
AY.26         1935    297  15.3%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,N1074S,V1264L] 
AY.26         1935     65   3.4%   1 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] 
AY.26         1935     62   3.2%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,A1020S,V1264L] 
AY.26         1935     35   1.8%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,P812L,D950N,V1264L] 

AY.42         1913    454  23.7%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.42         1913    170   8.9%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.42         1913    157   8.2%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.42         1913     83   4.3%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T719I,T732I,D950N] 
AY.42         1913     73   3.8%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T719I,D950N] 

AY.34         1803   1038  57.6%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N] (consensus)
AY.34         1803    127   7.0%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N] 
AY.34         1803     62   3.4%   2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.34         1803     55   3.1%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N,A1016V] 
AY.34         1803     27   1.5%   2 [T19R,T95I,G142D,V143I,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N,A1016V] 

AY.119.2      1790    729  40.7%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q675H,P681R,D950N] (consensus)
AY.119.2      1790    503  28.1%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q675H,P681R,D950N,V1176F] 
AY.119.2      1790     73   4.1%   1 [L5F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q675H,P681R,D950N] 
AY.119.2      1790     37   2.1%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,Q675H,P681R,D950N] 
AY.119.2      1790     32   1.8%   1 [T19R,T95I,G142D,E156G,F157-,R158-,G181V,L452R,T478K,D614G,Q675H,P681R,D950N] 

AY.118        1711    969  56.6%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.118        1711    186  10.9%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1264L] 
AY.118        1711     36   2.1%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.118        1711     20   1.2%   1 [T19R,A27V,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.118        1711     17   1.0%   1 [T19R,T95I,G142D,E156G,F157-,R158-,G446V,L452R,T478K,D614G,P681R,D950N] 

AY.47         1708    993  58.1%   0 [T19R,G142D,E156G,F157-,R158-,A222V,V289I,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.47         1708     59   3.5%   3 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,N501Y,D614G,P681R,D950N] 
AY.47         1708     45   2.6%   1 [T19R,G142D,E156G,F157-,R158-,A222V,V289I,L452R,T478K,I584V,D614G,P681R,D950N] 
AY.47         1708     38   2.2%   2 [T19R,G142D,E156G,F157-,R158-,R214H,A222V,V289I,L452R,S477I,T478K,D614G,P681R,D950N] 
AY.47         1708     26   1.5%   1 [T19R,E156G,F157-,R158-,A222V,V289I,L452R,T478K,D614G,P681R,D950N] 

AY.113        1674   1021  61.0%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.113        1674     81   4.8%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.113        1674     20   1.2%   1 [T19R,T95I,G142D,E156G,F157-,R158-,V433I,L452R,T478K,D614G,P681R,D950N] 
AY.113        1674     16   1.0%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D796Y,D950N] 
AY.113        1674     12   0.7%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,C1236F] 

AY.34.1       1666    590  35.4%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N,L1265F] (consensus)
AY.34.1       1666    448  26.9%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N,V1133I,L1265F] 
AY.34.1       1666     91   5.5%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N,L1265F] 
AY.34.1       1666     51   3.1%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N,P1263L,L1265F] 
AY.34.1       1666     49   2.9%   1 [T19R,T95I,G142D,E156G,F157-,R158-,P174S,L452R,T478K,D614G,Q677H,P681R,D950N,L1265F] 

AY.4.8        1505   1226  81.5%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.4.8        1505     52   3.5%   1 [T19R,T95I,G142D,E156G,F157-,R158-,G181R,L452R,T478K,D614G,P681R,D950N] 
AY.4.8        1505     23   1.5%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,T961M] 
AY.4.8        1505     20   1.3%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1020V] 
AY.4.8        1505     12   0.8%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1124V] 

B.1.1.529     1463    714  48.8%   0 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] (consensus)
B.1.1.529     1463    142   9.7%   9 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,L452R,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] 
B.1.1.529     1463     91   6.2%   1 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,G339D,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] 
B.1.1.529     1463     58   4.0%   2 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,G339D,R346K,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] 
B.1.1.529     1463     31   2.1%   2 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,L452R,T478K,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] 

AY.43.4       1388    180  13.0%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.43.4       1388    169  12.2%   2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.43.4       1388    145  10.4%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.43.4       1388    125   9.0%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.43.4       1388    111   8.0%   3 [T19R,E156G,F157-,R158-,K356R,L452R,T478K,D614G,P681R,D950N] 

AY.99.2       1290    498  38.6%   0 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.99.2       1290    265  20.5%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.99.2       1290     72   5.6%   1 [T19R,E156G,F157-,R158-,D178H,L452R,T478K,D614G,P681R,D950N] 
AY.99.2       1290     52   4.0%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R] 
AY.99.2       1290     20   1.6%   1 [L5F,T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.102        1249    488  39.1%   0 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.102        1249     71   5.7%   2 [T19R,R21T,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.102        1249     41   3.3%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,E1202Q] 
AY.102        1249     29   2.3%   1 [T19R,H69Y,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.102        1249     19   1.5%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,A520S,D614G,P681R,D950N] 

AY.121.1      1174    671  57.2%   0 [T19R,T29I,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.121.1      1174     81   6.9%   1 [V6F,T19R,T29I,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.121.1      1174     70   6.0%   1 [T19R,T29I,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.121.1      1174     62   5.3%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.121.1      1174     28   2.4%   2 [T19R,T29I,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,N1158D] 

AY.39.1.2     1056    691  65.4%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.39.1.2     1056     57   5.4%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N] 
AY.39.1.2     1056     51   4.8%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q675H,P681R,D950N] 
AY.39.1.2     1056     41   3.9%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.39.1.2     1056     24   2.3%   1 [L5F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.124         999    373  37.3%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.124         999     67   6.7%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.124         999     48   4.8%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A688V,D950N] 
AY.124         999     43   4.3%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,E1202Q] 
AY.124         999     40   4.0%   2 [T19R,H69Y,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,I1114V] 

AY.3.1         986    572  58.0%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.3.1         986     32   3.2%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,I1227V] 
AY.3.1         986     23   2.3%   1 [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.3.1         986     22   2.2%   3 [T19R,G142D,E156G,F157-,R158-,M177I,A222V,L452R,T478K,D614G,P681R,D950N,L1063F] 
AY.3.1         986     19   1.9%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.27          947    680  71.8%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,Q613H,D614G,P681R,D950N] (consensus)
AY.27          947     61   6.4%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.27          947     38   4.0%   1 [L8F,T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,Q613H,D614G,P681R,D950N] 
AY.27          947     19   2.0%   1 [T19R,G75V,G142D,E156G,F157-,R158-,A222V,L452R,T478K,Q613H,D614G,P681R,D950N] 
AY.27          947     16   1.7%   1 [T19R,G142D,Y144-,E156G,F157-,R158-,A222V,L452R,T478K,Q613H,D614G,P681R,D950N] 

AY.23          938    483  51.5%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1264L] (consensus)
AY.23          938     65   6.9%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1264L] 
AY.23          938     22   2.3%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A845S,D950N,V1264L] 
AY.23          938     20   2.1%   3 [T19R,H69-,V70-,G142D,E156G,F157-,R158-,D215N,L452R,T478K,D614G,P681R,D950N,V1264L] 
AY.23          938     11   1.2%   4 [T19R,S71P,T95I,G142D,Y145H,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T859N,D950N,V1264L] 

AY.85          849    197  23.2%   0 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.85          849    194  22.9%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.85          849     26   3.1%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,V860I,D950N] 
AY.85          849     26   3.1%   1 [T19R,T95I,E156G,F157-,R158-,L452R,S477I,T478K,D614G,P681R,D950N] 
AY.85          849     20   2.4%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,T678I,P681R,D950N] 

AY.75          715    418  58.5%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.75          715     39   5.5%   2 [T19R,G142D,E156G,F157-,R158-,D215Y,A222V,R237S,L452R,T478K,D614G,P681R,D950N] 
AY.75          715     27   3.8%   2 [T19R,G142D,E156G,F157-,R158-,A222V,V289I,L452R,T478K,V483F,D614G,P681R,D950N] 
AY.75          715     20   2.8%   1 [T19R,V90L,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.75          715     19   2.7%   1 [T19R,G142D,E156G,F157-,R158-,D215Y,A222V,L452R,T478K,D614G,P681R,D950N] 

AY.109         706    401  56.8%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.109         706     58   8.2%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S698L,D950N,H1058Y] 
AY.109         706     43   6.1%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1058Y] 
AY.109         706     33   4.7%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S939F,D950N] 
AY.109         706     16   2.3%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E484K,D614G,P681R,D950N] 

AY.92          696    284  40.8%   0 [T19R,T95I,G142D,E156G,F157-,R158-,D178N,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.92          696     92  13.2%   2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.92          696     36   5.2%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.92          696     30   4.3%   1 [T19R,T95I,E156G,F157-,R158-,D178N,L452R,T478K,D614G,P681R,D950N] 
AY.92          696     18   2.6%   3 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1167V] 

AY.39.1.1      694    385  55.5%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.39.1.1      694    143  20.6%   1 [T19R,T95I,G142D,E156G,F157-,R158-,G219D,L452R,T478K,D614G,P681R,D950N] 
AY.39.1.1      694     67   9.7%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,R765H,D950N] 
AY.39.1.1      694     21   3.0%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1230L] 
AY.39.1.1      694      7   1.0%   2 [T19R,T95I,G142D,E156G,F157-,R158-,G219D,L452R,T478K,D614G,P681R,D950N,R1014T] 

AY.4.9         663    393  59.3%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.4.9         663     56   8.4%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.4.9         663     30   4.5%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N] 
AY.4.9         663     19   2.9%   3 [T19R,T95I,E156G,F157-,R158-,A352S,L452R,T478K,D614G,Q677H,P681R,D950N] 
AY.4.9         663      9   1.4%   1 [T19R,T95I,G142D,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R,D950N] 

AY.4.10        628    537  85.5%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812S,D950N] (consensus)
AY.4.10        628     10   1.6%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812S,T859I,D950N] 
AY.4.10        628      7   1.1%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812S,D950N,T1117I] 
AY.4.10        628      7   1.1%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E583D,D614G,P681R,P812S,D950N] 
AY.4.10        628      6   1.0%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812S,D950N] 

AY.74          581    409  70.4%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.74          581     57   9.8%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,H1101Y] 
AY.74          581     11   1.9%   3 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,H655Y,P681R,D950N] 
AY.74          581     10   1.7%   2 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,S680F,P681R,D950N,H1101Y] 
AY.74          581      9   1.5%   1 [T19R,G142D,Y144-,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 

AY.7.1         547    287  52.5%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.7.1         547    103  18.8%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.7.1         547     24   4.4%   1 [T19R,G142D,E156G,F157-,R158-,S255F,L452R,T478K,D614G,P681R,D950N] 
AY.7.1         547     19   3.5%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,T572I,D614G,P681R,D950N] 
AY.7.1         547     10   1.8%   2 [V16F,T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.110         501    196  39.1%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.110         501     30   6.0%   1 [T19R,H69Y,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.110         501     23   4.6%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,Q787K,D950N,G1219C] 
AY.110         501     10   2.0%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.110         501     10   2.0%   1 [T19R,A27V,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.3.3         459    311  67.8%   0 [T19R,V70I,G142D,E156G,F157-,R158-,Q414R,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.3.3         459     29   6.3%   1 [T19R,V70I,E156G,F157-,R158-,Q414R,L452R,T478K,D614G,P681R,D950N] 
AY.3.3         459     20   4.4%   2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.3.3         459     19   4.1%   1 [T19R,V70I,G142D,E156G,F157-,R158-,Q414R,L452R,T478K,D614G,P681R,D950N,D1163Y] 
AY.3.3         459     12   2.6%   1 [L5F,T19R,V70I,G142D,E156G,F157-,R158-,Q414R,L452R,T478K,D614G,P681R,D950N] 

AY.107         433    177  40.9%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1101Y] (consensus)
AY.107         433     39   9.0%   5 [T19R,L452R,T478K,D614G,P681R,D950N,H1101Y] 
AY.107         433     36   8.3%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1101Y] 
AY.107         433     34   7.9%   2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1101Y] 
AY.107         433     17   3.9%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D936G,D950N,H1101Y] 

AY.46.4        425    326  76.7%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,E661D,P681R,D950N] (consensus)
AY.46.4        425     10   2.4%   1 [T19R,G142D,E156G,F157-,R158-,A222S,L452R,T478K,D614G,E661D,P681R,D950N] 
AY.46.4        425      8   1.9%   2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,A520S,D614G,E661D,P681R,D950N,K1181R] 
AY.46.4        425      5   1.2%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,E661D,P681R,D950N,E1150D] 
AY.46.4        425      5   1.2%   1 [T19R,G142D,E156G,F157-,R158-,V213L,L452R,T478K,D614G,E661D,P681R,D950N] 

AY.90          399    352  88.2%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.90          399     15   3.8%   2 [T19R,G142D,E156G,F157-,R158-,P174S,L452R,T478K,D614G,P681R,D950N,V1122L] 
AY.90          399     12   3.0%   1 [T19R,G142D,E156G,F157-,R158-,A262S,L452R,T478K,D614G,P681R,D950N] 
AY.90          399      5   1.3%   1 [T19R,G142D,E156G,F157-,R158-,P174S,L452R,T478K,D614G,P681R,D950N] 
AY.90          399      2   0.5%   3 [T19R,G142D,E156G,F157-,R158-,P174S,L452R,T478K,D614G,P681R,D950N,V1122L,E1150D] 

AY.5.4         395    171  43.3%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.5.4         395     43  10.9%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.5.4         395     27   6.8%   1 [T19R,D80Y,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.5.4         395     15   3.8%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,N501Y,D614G,P681R,D950N] 
AY.5.4         395     14   3.5%   3 [T19R,D80Y,G142D,E156G,F157-,R158-,S162I,H245Y,L452R,T478K,D614G,P681R,D950N] 

AY.122.3       387    356  92.0%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N] (consensus)
AY.122.3       387      7   1.8%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,Q613H,D614G,P681R,D950N] 
AY.122.3       387      3   0.8%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,A684V,D950N] 
AY.122.3       387      3   0.8%   1 [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N] 
AY.122.3       387      2   0.5%   1 [T19R,N30H,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N] 

AY.39.2        378    174  46.0%   0 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073N] (consensus)
AY.39.2        378    124  32.8%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073N] 
AY.39.2        378     13   3.4%   1 [T19R,T95I,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,K1073N] 
AY.39.2        378     10   2.6%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,V635A,P681R,D950N,K1073N] 
AY.39.2        378      6   1.6%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073N,R1185L] 

AY.132         368    317  86.1%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.132         368     24   6.5%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1079T] 
AY.132         368      4   1.1%   2 [T19K,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.132         368      2   0.5%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L176F,L452R,T478K,D614G,P681R,D950N] 
AY.132         368      2   0.5%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,M1233I] 

AY.46.1        367    228  62.1%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.46.1        367     58  15.8%   1 [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.46.1        367      7   1.9%   2 [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162L] 
AY.46.1        367      7   1.9%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,P479S,D614G,P681R,D950N] 
AY.46.1        367      6   1.6%   1 [T19R,L54F,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.86          346    118  34.1%   0 [T19R,D138Y,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.86          346     80  23.1%   3 [T19R,G142D,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,A845S,D950N] 
AY.86          346     40  11.6%   2 [T19R,K77N,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.86          346     21   6.1%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.86          346     15   4.3%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.123         343    170  49.6%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1263L] (consensus)
AY.123         343     41  12.0%   1 [T19R,T95I,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,P1263L] 
AY.123         343     30   8.7%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1263L] 
AY.123         343     18   5.2%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,Q1201H,P1263L] 
AY.123         343     11   3.2%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162S,P1263L] 

AY.79          341    171  50.1%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.79          341     24   7.0%   4 [T19R,D80Y,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A924S,D950N,K1191N] 
AY.79          341     17   5.0%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.79          341      7   2.1%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T859N,D950N] 
AY.79          341      7   2.1%   2 [T19R,S112P,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.54          304    152  50.0%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.54          304     18   5.9%   3 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N,L1265F] 
AY.54          304     16   5.3%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N] 
AY.54          304      9   3.0%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.54          304      9   3.0%   2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N] 

AY.23.1        299    216  72.2%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,L1234I,V1264L] (consensus)
AY.23.1        299     14   4.7%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,E1188D,L1234I,V1264L] 
AY.23.1        299      9   3.0%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A694V,D950N,L1234I,V1264L] 
AY.23.1        299      9   3.0%   1 [T19R,G142D,E156G,F157-,R158-,Q239K,L452R,T478K,D614G,P681R,D950N,L1234I,V1264L] 
AY.23.1        299      6   2.0%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,I1210T,L1234I,V1264L] 

AY.46.5        293    236  80.5%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.46.5        293      8   2.7%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1101Y] 
AY.46.5        293      6   2.0%   1 [T19R,G142D,E156G,F157-,R158-,E309Q,L452R,T478K,D614G,P681R,D950N] 
AY.46.5        293      5   1.7%   1 [T19R,G142D,E156G,F157-,R158-,A348S,L452R,T478K,D614G,P681R,D950N] 
AY.46.5        293      4   1.4%   2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,I818V,S939F,D950N] 

AY.30          291     91  31.3%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.30          291     58  19.9%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.30          291     16   5.5%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.30          291     11   3.8%   1 [T19R,G142D,E156G,F157-,R158-,L452R,D614G,P681R,D950N] 
AY.30          291     10   3.4%   2 [T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.114         291    189  64.9%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.114         291     16   5.5%   2 [T19R,S112L,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.114         291      8   2.7%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.114         291      5   1.7%   1 [T19R,H69Y,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.114         291      5   1.7%   1 [T19R,T95I,D138Y,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.43.3        290    193  66.6%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.43.3        290     19   6.6%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.43.3        290     19   6.6%   1 [T19R,G142D,E156G,F157-,R158-,V367L,L452R,T478K,D614G,P681R,D950N] 
AY.43.3        290      7   2.4%   3 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D1127E] 
AY.43.3        290      6   2.1%   3 [V6F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1041N,G1046D] 

AY.46.2        282     54  19.1%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.46.2        282     46  16.3%   2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809S,D950N] 
AY.46.2        282     38  13.5%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.46.2        282     24   8.5%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809S,D950N] 
AY.46.2        282     11   3.9%   2 [T19R,S98P,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.41          276    130  47.1%   0 [T19R,G142D,E156G,F157-,R158-,A262S,L452R,S477I,T478K,D614G,P681R,D950N,G1167V] (consensus)
AY.41          276     37  13.4%   1 [T19R,E156G,F157-,R158-,A262S,L452R,S477I,T478K,D614G,P681R,D950N,G1167V] 
AY.41          276     15   5.4%   2 [T19R,E156G,F157-,R158-,A262S,L452R,S477I,T478K,Q613H,D614G,P681R,D950N,G1167V] 
AY.41          276      8   2.9%   1 [T19R,G142D,E156G,F157-,R158-,A262S,L452R,S477I,T478K,D614G,P681R,D950N,G1167V,K1191N] 
AY.41          276      8   2.9%   1 [T19R,D138Y,G142D,E156G,F157-,R158-,A262S,L452R,S477I,T478K,D614G,P681R,D950N,G1167V] 

AY.29          267    108  40.4%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.29          267     85  31.8%   1 [T19R,T95I,G142D,E156G,F157-,R158-,Q414R,L452R,T478K,D614G,P681R,D950N] 
AY.29          267     13   4.9%   2 [T19R,T95I,G142D,E156G,F157-,R158-,V308L,Q414R,L452R,T478K,D614G,P681R,D950N] 
AY.29          267      7   2.6%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A846G,D950N] 
AY.29          267      6   2.2%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S939F,D950N,E1202Q] 

AY.34.1.1      262    129  49.2%   0 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N,L1265F] (consensus)
AY.34.1.1      262     14   5.3%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N,V1133I,L1265F] 
AY.34.1.1      262     11   4.2%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N,L1265F] 
AY.34.1.1      262      9   3.4%   2 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R] 
AY.34.1.1      262      7   2.7%   1 [T19R,T95I,E156G,F157-,R158-,S349A,L452R,T478K,D614G,Q677H,P681R,D950N,L1265F] 

AY.93          259    190  73.4%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.93          259     16   6.2%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,A623S,P681R,D950N] 
AY.93          259      8   3.1%   1 [T19R,S50P,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.93          259      5   1.9%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1226V] 
AY.93          259      5   1.9%   1 [T19R,G142D,E156G,F157-,R158-,G446V,L452R,T478K,D614G,P681R,D950N] 

AY.4.3         254     65  25.6%   0 [T19R,P26S,L54F,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.4.3         254     64  25.2%   2 [T19R,P26S,L54F,T95I,G142D,E156G,F157-,R158-,A262S,L452R,T478K,D614G,P681R,D950N,A1078S] 
AY.4.3         254     23   9.1%   1 [T19R,P26S,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.4.3         254     17   6.7%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.4.3         254     14   5.5%   1 [T19R,P26S,L54F,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.59          252    128  50.8%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.59          252     22   8.7%   1 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.59          252     15   6.0%   7 [T19R,P85T,V90D,Y91D,F92S,S94T,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,E1182Q] 
AY.59          252     10   4.0%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,S704L,D950N] 
AY.59          252      6   2.4%   2 [T19R,A93S,G142D,E156G,F157-,R158-,A222V,S256L,L452R,T478K,D614G,P681R,D950N] 

AY.116.1       243    124  51.0%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.116.1       243     31  12.8%   1 [S12F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.116.1       243     13   5.3%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,M1229I] 
AY.116.1       243      8   3.3%   1 [T19R,T95I,G142D,E156G,F157-,R158-,F306L,L452R,T478K,D614G,P681R,D950N] 
AY.116.1       243      6   2.5%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,A570V,D614G,P681R,D950N] 

AY.4.4         241    100  41.5%   0 [L5F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S929T,D950N] (consensus)
AY.4.4         241     20   8.3%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S929T,D950N] 
AY.4.4         241     13   5.4%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.4.4         241     12   5.0%   1 [L5F,T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S929T,D950N] 
AY.4.4         241     10   4.1%   2 [L5F,T19R,G75V,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S929T,D950N] 

AY.24          229    145  63.3%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,M1237I] (consensus)
AY.24          229     30  13.1%   1 [T19R,G142D,E156G,F157-,R158-,A222V,G446S,L452R,T478K,D614G,P681R,D950N,M1237I] 
AY.24          229     11   4.8%   1 [T19R,G142D,E156G,F157-,R158-,A222V,Y265C,L452R,T478K,D614G,P681R,D950N,M1237I] 
AY.24          229      9   3.9%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,T724A,D950N,M1237I] 
AY.24          229      6   2.6%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 

AY.9           210     86  41.0%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.9           210     14   6.7%   2 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,I1169V] 
AY.9           210     13   6.2%   1 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.9           210     13   6.2%   1 [T19R,G142D,E156G,F157-,R158-,L189F,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.9           210     11   5.2%   3 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,L948I,D950N,I1169V] 

AY.106         204     48  23.5%   0 [T19R,T95I,G142D,E156G,F157-,R158-,S255F,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.106         204     40  19.6%   2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.106         204     13   6.4%   2 [T19R,T95I,E156G,F157-,R158-,S255F,L452R,T478K,D614G,P681R,D950N,A1087S] 
AY.106         204     13   6.4%   1 [T19R,T95I,G142D,E156G,F157-,R158-,S255F,L452R,T478K,D614G,P681R,D950N,A1087S] 
AY.106         204     10   4.9%   1 [T19R,T95I,E156G,F157-,R158-,S255F,L452R,T478K,D614G,P681R,D950N] 

AY.120.1       204    123  60.3%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.120.1       204     11   5.4%   2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.120.1       204      8   3.9%   1 [T19R,L54F,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.120.1       204      7   3.4%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D574Y,D614G,P681R,D950N] 
AY.120.1       204      7   3.4%   1 [S12F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.128         199     91  45.7%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.128         199     29  14.6%   1 [T19R,T95I,G142D,E156G,F157-,R158-,T250A,L452R,T478K,D614G,P681R,D950N] 
AY.128         199     26  13.1%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.128         199      7   3.5%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,A653V,P681R,D950N] 
AY.128         199      3   1.5%   2 [T19R,G142D,E156G,F157-,R158-,L176F,L452R,T478K,D614G,P681R,D950N] 

AY.14          196    160  81.6%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.14          196     17   8.7%   2 [T19R,L54F,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,L1063F] 
AY.14          196      3   1.5%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1191N] 
AY.14          196      2   1.0%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,N1074S] 
AY.14          196      1   0.5%   1 [T19R,P85S,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.66          191    147  77.0%   0 [T19R,G142D,E156G,F157-,R158-,A222V,A260T,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.66          191      9   4.7%   1 [T19R,G142D,E156G,F157-,R158-,A222V,A260T,L452R,T478K,D614G,P681R,T791I,D950N] 
AY.66          191      9   4.7%   1 [T19R,G142D,E156G,F157-,R158-,A222V,A260T,L452R,T478K,D614G,P681R,D950N,G1124V] 
AY.66          191      7   3.7%   1 [T19R,G142D,E156G,F157-,R158-,A222V,A260T,L452R,T478K,D614G,P681R,A852V,D950N] 
AY.66          191      4   2.1%   1 [T19R,V83F,G142D,E156G,F157-,R158-,A222V,A260T,L452R,T478K,D614G,P681R,D950N] 

AY.104         190    123  64.7%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,T572I,D614G,P681R,D950N] (consensus)
AY.104         190      7   3.7%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,T572I,D614G,P681R,A845S,D950N] 
AY.104         190      3   1.6%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,T572I,D614G,P681R,S689I,D950N] 
AY.104         190      3   1.6%   3 [T19R,H49Y,T95I,G142D,E156G,F157-,R158-,A288S,L452R,T478K,T572I,D614G,P681R,A688S,D950N] 
AY.104         190      3   1.6%   1 [T19R,R21I,T95I,G142D,E156G,F157-,R158-,L452R,T478K,T572I,D614G,P681R,D950N] 

AY.80          189     61  32.3%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.80          189     50  26.5%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1020S] 
AY.80          189     43  22.8%   1 [T19R,T20I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.80          189      5   2.6%   2 [T19R,T20I,G142D,H146Y,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.80          189      5   2.6%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.119.1       179     65  36.3%   0 [T19R,T95I,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,I834T,D950N] (consensus)
AY.119.1       179     46  25.7%   1 [T19R,T95I,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,I834T,D950N] 
AY.119.1       179     21  11.7%   2 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,I834T,D950N] 
AY.119.1       179      7   3.9%   1 [T19R,L54F,T95I,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,I834T,D950N] 
AY.119.1       179      4   2.2%   2 [T19R,T95I,G142D,E156G,F157-,R158-,M177T,A222V,L452R,T478K,D614G,P681R,A684T,I834T,D950N] 

AY.5.3         178    101  56.7%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.5.3         178     23  12.9%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.5.3         178      9   5.1%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,S1021L] 
AY.5.3         178      5   2.8%   2 [T19R,G142D,Y144-,E156G,F157-,R158-,G261D,L452R,T478K,D614G,P681R,D950N] 
AY.5.3         178      4   2.2%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T859I,D950N] 

AY.101         175     79  45.1%   0 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.101         175     21  12.0%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.101         175      9   5.1%   2 [T19R,T95I,G142D,E156G,F157-,R158-,N440K,L452R,T478K,D614G,P681R,D950N] 
AY.101         175      8   4.6%   1 [T19R,T95I,E156G,F157-,R158-,N440K,L452R,T478K,D614G,P681R,D950N] 
AY.101         175      6   3.4%   1 [T19R,T95I,E156G,F157-,R158-,R273K,L452R,T478K,D614G,P681R,D950N] 

AY.43.2        172    112  65.1%   0 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.43.2        172     14   8.1%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R] 
AY.43.2        172      9   5.2%   1 [T19R,E156G,F157-,R158-,L452R,E471Q,T478K,D614G,P681R,D950N] 
AY.43.2        172      8   4.7%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.43.2        172      7   4.1%   1 [T19R,E156G,F157-,R158-,L452R,S477I,T478K,D614G,P681R,D950N] 

AY.72          168    113  67.3%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.72          168     20  11.9%   1 [T19R,G142D,E156G,F157-,R158-,F201L,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.72          168      6   3.6%   1 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.72          168      3   1.8%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1122L] 
AY.72          168      3   1.8%   1 [L5-,T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 

AY.124.1       162     69  42.6%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.124.1       162     22  13.6%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N] 
AY.124.1       162     20  12.3%   1 [L18F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.124.1       162      6   3.7%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,M1229I] 
AY.124.1       162      5   3.1%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.57          161    107  66.5%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.57          161     10   6.2%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,T676A,P681R,D950N] 
AY.57          161      2   1.2%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.57          161      2   1.2%   2 [T19R,V120F,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,G1124V] 
AY.57          161      2   1.2%   1 [T19R,V70F,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 

AY.84          156     73  46.8%   0 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.84          156     43  27.6%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.84          156      7   4.5%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R] 
AY.84          156      3   1.9%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.84          156      2   1.3%   2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1263L] 

AY.42.1        156    138  88.5%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T719I,L938F,D950N] (consensus)
AY.42.1        156      7   4.5%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,T719I,L938F,D950N] 
AY.42.1        156      5   3.2%   2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,L938F,D950N] 
AY.42.1        156      4   2.6%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T719I,T723I,L938F,D950N] 
AY.42.1        156      1   0.6%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,L938F,D950N,G1251V] 

AY.122.1       154     58  37.7%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T791I,D950N] (consensus)
AY.122.1       154     20  13.0%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T791I,D950N] 
AY.122.1       154     12   7.8%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T791I,D950N,L1049I] 
AY.122.1       154      9   5.8%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.122.1       154      4   2.6%   2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.108         153     73  47.7%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,D950N,V1176F] (consensus)
AY.108         153     34  22.2%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.108         153     20  13.1%   3 [T19R,T95I,G142D,E156G,F157-,R158-,Y248H,L452R,T478K,D614G,P681R,D950N] 
AY.108         153      6   3.9%   1 [T19R,T95I,G142D,E156G,F157-,R158-,A243V,L452R,T478K,E484Q,D614G,P681R,D950N,V1176F] 
AY.108         153      4   2.6%   3 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,T572I,D614G,P681R,D950N] 

AY.34.2        153     99  64.7%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,T859I,D950N] (consensus)
AY.34.2        153     13   8.5%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,T859I,D950N,A1020S] 
AY.34.2        153      6   3.9%   1 [T19R,T95I,G142D,E156G,F157-,R158-,S256L,L452R,T478K,D614G,Q677H,P681R,T859I,D950N] 
AY.34.2        153      4   2.6%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N] 
AY.34.2        153      3   2.0%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,T859I,D950N,T1117I] 

AY.76          149     67  45.0%   0 [T19R,G142D,E156G,F157-,R158-,Q173H,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.76          149     23  15.4%   1 [T19R,G142D,E156G,F157-,R158-,Q173H,L452R,T478K,D614G,P681R,V826L,D950N] 
AY.76          149      8   5.4%   1 [T19R,G142D,E156G,F157-,R158-,Q173H,L452R,T478K,D614G,P681R,D950N,G1219C] 
AY.76          149      7   4.7%   1 [T19R,V70I,G142D,E156G,F157-,R158-,Q173H,L452R,T478K,D614G,P681R,D950N] 
AY.76          149      6   4.0%   1 [T19R,G142D,E156G,F157-,R158-,Q173H,T307I,L452R,T478K,D614G,P681R,D950N] 

AY.78          144     28  19.4%   0 [T19R,H69Y,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.78          144     17  11.8%   3 [T19R,T95I,G142D,Y144-,E156G,F157-,R158-,A288V,L452R,T478K,D614G,P681R,D950N] 
AY.78          144     14   9.7%   3 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,I834V,D950N] 
AY.78          144     13   9.0%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.78          144     11   7.6%   2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.70          140     42  30.0%   0 [T19R,R21T,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.70          140     34  24.3%   1 [T19R,R21T,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.70          140     28  20.0%   2 [T19R,R21T,G142D,E156G,F157-,R158-,A222V,L452R,T478K,E484Q,Q613H,D614G,P681R,D950N] 
AY.70          140      8   5.7%   3 [T19R,R21T,E156G,F157-,R158-,A222V,L452R,T478K,E484Q,Q613H,D614G,P681R,D950N] 
AY.70          140      4   2.9%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 

AY.39.1.3      138    107  77.5%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162A] (consensus)
AY.39.1.3      138     13   9.4%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162A] 
AY.39.1.3      138      8   5.8%   1 [T19R,T76I,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162A] 
AY.39.1.3      138      2   1.4%   1 [T19R,T95I,G142D,E156G,F157-,R158-,D215Y,L452R,T478K,D614G,P681R,D950N,P1162A] 
AY.39.1.3      138      2   1.4%   3 [L5F,T19R,R21T,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162S] 

AY.7           133     64  48.1%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.7           133     48  36.1%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T747I,D950N] 
AY.7           133      9   6.8%   1 [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.7           133      2   1.5%   2 [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T941I,D950N] 
AY.7           133      2   1.5%   2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812L,D950N] 

AY.51          131     48  36.6%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,A520S,D614G,P681R,D950N] (consensus)
AY.51          131     39  29.8%   1 [T19R,E156G,F157-,R158-,L452R,T478K,A520S,D614G,P681R,D950N] 
AY.51          131     13   9.9%   2 [T19R,E156G,F157-,R158-,L452R,T478K,A520S,D614G,P681R,D950N,D1084Y] 
AY.51          131      4   3.1%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,A520S,D614G,P681R,D950N,D1084Y] 
AY.51          131      3   2.3%   2 [T19R,E156G,F157-,R158-,L452R,T478K,A520S,D614G,P681R,I834S,D950N] 

AY.1           128     81  63.3%   0 [T19R,T95I,G142D,E156G,F157-,R158-,W258L,K417N,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.1           128      6   4.7%   1 [V16A,T19R,T95I,G142D,E156G,F157-,R158-,W258L,K417N,L452R,T478K,D614G,P681R,D950N] 
AY.1           128      3   2.3%   1 [T19R,T95I,E156G,F157-,R158-,W258L,K417N,L452R,T478K,D614G,P681R,D950N] 
AY.1           128      3   2.3%   1 [T19R,T95I,G142D,E156G,F157-,R158-,N188Y,W258L,K417N,L452R,T478K,D614G,P681R,D950N] 
AY.1           128      3   2.3%   1 [T19R,T95I,G142D,E156G,F157-,R158-,W258L,K417N,L452R,T478K,D614G,P681R,D950N,L1024I] 

AY.43.1        124     87  70.2%   0 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.43.1        124      9   7.3%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R] 
AY.43.1        124      5   4.0%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.43.1        124      5   4.0%   1 [T19R,S98F,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.43.1        124      2   1.6%   3 [T19R,S98F,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,Q926L,D950N] 

AY.4.7         121     55  45.5%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.4.7         121     13  10.7%   3 [T19R,G142D,E156G,F157-,R158-,V213M,N354K,L452R,T478K,D614G,P681R,D950N] 
AY.4.7         121     12   9.9%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.4.7         121     10   8.3%   1 [T19I,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.4.7         121      6   5.0%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.116         117     47  40.2%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.116         117     15  12.8%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.116         117     14  12.0%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162L] 
AY.116         117      9   7.7%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,V772I,D950N] 
AY.116         117      4   3.4%   1 [T19R,F79L,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.73          110     41  37.3%   0 [T19R,G142D,E156G,F157-,R158-,I210V,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.73          110     23  20.9%   2 [T19R,G142D,W152L,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.73          110     11  10.0%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.73          110      5   4.5%   2 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.73          110      5   4.5%   1 [T19R,E156G,F157-,R158-,I210V,A222V,L452R,T478K,D614G,P681R,D950N] 

AY.122.2       104     59  56.7%   0 [T19R,G142D,E156G,F157-,R158-,A411S,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.122.2       104     12  11.5%   1 [T19R,G142D,E156G,F157-,R158-,A411S,L452R,T478K,D614G,P681R,D950N,T1117I] 
AY.122.2       104      4   3.8%   1 [T19R,G142D,E156G,F157-,R158-,E324K,A411S,L452R,T478K,D614G,P681R,D950N] 
AY.122.2       104      3   2.9%   1 [T19R,G142D,E156G,F157-,R158-,A411S,L452R,T478K,D614G,P681R,D950N,H1101Y] 
AY.122.2       104      2   1.9%   3 [T19R,T29I,G142D,E156G,F157-,R158-,K424N,L452R,T478K,D614G,P681R,D950N] 

AY.123.1       103     45  43.7%   0 [T19R,T95I,G142D,E156G,F157-,R158-,D178N,L452R,T478K,D614G,P681R,D950N,P1263L] (consensus)
AY.123.1       103     20  19.4%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1263L] 
AY.123.1       103     17  16.5%   2 [L5F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1263L] 
AY.123.1       103      7   6.8%   1 [T19R,T95I,E156G,F157-,R158-,D178N,L452R,T478K,D614G,P681R,D950N,P1263L] 
AY.123.1       103      3   2.9%   4 [T19R,T22I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.133         100     52  52.0%   0 [N17K,L18F,T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,P499R,D614G,P681R,D950N,V1264L] (consensus)
AY.133         100     15  15.0%   4 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] 
AY.133         100      9   9.0%   1 [N17K,L18F,T19R,E156G,F157-,R158-,A222V,L452R,T478K,P499R,D614G,P681R,D950N,V1264L] 
AY.133         100      6   6.0%   1 [N17K,L18F,T19R,G142D,E156G,F157-,R158-,E180A,A222V,L452R,T478K,P499R,D614G,P681R,D950N,V1264L] 
AY.133         100      2   2.0%   5 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1128L,V1264L] 

AY.7.2          99     43  43.4%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.7.2          99     31  31.3%   1 [V16F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.7.2          99      3   3.0%   2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1219C,M1237I] 
AY.7.2          99      2   2.0%   1 [T19R,G142D,E156G,F157-,R158-,Y269H,L452R,T478K,D614G,P681R,D950N] 
AY.7.2          99      2   2.0%   2 [T19R,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R,D950N] 

AY.131          98     24  24.5%   0 [T19R,T95I,G142D,E156G,F157-,R158-,G446V,L452R,T478K,N501T,D614G,P681R,D950N] (consensus)
AY.131          98     12  12.2%   1 [T19R,T95I,G142D,E156G,F157-,R158-,G446V,L452R,T478K,E484Q,N501T,D614G,P681R,D950N] 
AY.131          98      8   8.2%   1 [T19R,T95I,E156G,F157-,R158-,G446V,L452R,T478K,N501T,D614G,P681R,D950N] 
AY.131          98      5   5.1%   6 [T19R,A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,E156G,F157-,R158-,G446V,L452R,T478K,N501T,D614G,P681R,D950N] 
AY.131          98      4   4.1%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.16           98     44  44.9%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.16           98     29  29.6%   2 [T19R,G142D,Y144-,E156G,F157-,R158-,D215H,L452R,T478K,D614G,P681R,D950N] 
AY.16           98      8   8.2%   3 [T19R,G142D,Y144-,E156G,F157-,R158-,D215H,L452R,T478K,D614G,P681R,D950N,E1262D] 
AY.16           98      3   3.1%   3 [T19R,G75V,G142D,Y144-,E156G,F157-,R158-,D215H,L452R,T478K,D614G,P681R,D950N] 
AY.16           98      2   2.0%   1 [T19R,I100T,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

B.1.640.1       97     78  80.4%   0 [P9L,E96Q,C136-,N137-,D138-,P139-,F140-,L141-,G142-,V143-,Y144-,R190S,I210T,R346S,N394S,Y449N,F490R,N501Y,D614G,P681H,T859N,D936H] (consensus)
B.1.640.1       97      4   4.1%   1 [P9L,E96Q,C136-,N137-,D138-,P139-,F140-,L141-,G142-,V143-,Y144-,R190S,I210T,R346S,N394S,Y449N,F490R,N501Y,D614G,P681H,T859N,D936Y] 
B.1.640.1       97      3   3.1%   1 [P9L,E96Q,C136-,N137-,D138-,P139-,F140-,L141-,G142-,V143-,Y144-,R190S,I210T,R346S,N394S,Y449N,F490R,N501Y,D614G,P681H,S704L,T859N,D936H] 
B.1.640.1       97      2   2.1%   1 [P9L,E96Q,C136-,N137-,D138-,P139-,F140-,L141-,G142-,V143-,Y144-,R190S,I210T,R346S,N394S,Y449N,F490R,N501Y,D614G,P681H,T761S,T859N,D936H] 
B.1.640.1       97      2   2.1%   1 [P9L,E96Q,C136-,N137-,D138-,P139-,F140-,L141-,G142-,V143-,Y144-,R190S,I210T,R346S,N394S,Y449N,F490R,N501Y,D614G,P681H,T859N,D936H,G1124V] 

AY.9.2.2        97     73  75.3%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,Q675K,P681R,D950N] (consensus)
AY.9.2.2        97      7   7.2%   1 [T19R,G142D,E156G,F157-,R158-,G181V,A222V,L452R,T478K,D614G,Q675K,P681R,D950N] 
AY.9.2.2        97      5   5.2%   1 [T19R,G142D,E156G,F157-,R158-,A222V,T299I,L452R,T478K,D614G,Q675K,P681R,D950N] 
AY.9.2.2        97      3   3.1%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,Q675K,P681R,D950N,M1237I] 
AY.9.2.2        97      3   3.1%   1 [L5F,T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,Q675K,P681R,D950N] 

AY.43.5         93     74  79.6%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,N501S,D614G,P681R,D950N] (consensus)
AY.43.5         93     12  12.9%   1 [T19R,E156G,F157-,R158-,L452R,T478K,N501S,D614G,P681R,D950N] 
AY.43.5         93      1   1.1%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,N501S,D614G,Q675H,P681R,D950N] 
AY.43.5         93      1   1.1%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,N501S,D614G,P681R,P812L,D950N] 
AY.43.5         93      1   1.1%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,N501S,D614G,P681R,T716I,D950N] 

AY.32           89     35  39.3%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,T572I,D614G,P681R,D950N] (consensus)
AY.32           89      9  10.1%   1 [T19R,E156G,F157-,R158-,L452R,T478K,T572I,D614G,P681R,D950N] 
AY.32           89      7   7.9%   4 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] 
AY.32           89      7   7.9%   3 [S12F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.32           89      3   3.4%   2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.45           85     52  61.2%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.45           85      6   7.1%   2 [T19R,G142D,E156G,F157-,R158-,K278N,L452R,T478K,D614G,P681R,A879S,D950N] 
AY.45           85      4   4.7%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.45           85      2   2.4%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.45           85      2   2.4%   2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T747I,D936N,D950N] 

AY.28           82     53  64.6%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,A701S,D950N,A1078S] (consensus)
AY.28           82      3   3.7%   3 [T19R,L24F,G142D,M153I,E156G,F157-,R158-,A222V,L452R,T478K,D574N,D614G,P681R,A701S,D950N,A1078S] 
AY.28           82      2   2.4%   2 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,T547I,D614G,P681R,A701S,D950N,A1078S,E1111Q] 
AY.28           82      2   2.4%   2 [T19R,G142D,Y144-,E156G,F157-,R158-,A222V,T376I,L452R,T478K,D614G,P681R,A701S,D950N,A1078S] 
AY.28           82      1   1.2%   3 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 

AY.13           80     53  66.2%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.13           80      8  10.0%   1 [T19R,F32Y,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.13           80      5   6.2%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1084V] 
AY.13           80      2   2.5%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104I] 
AY.13           80      2   2.5%   3 [T19R,F32Y,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,E1258D] 

AY.35           72     61  84.7%   0 [T19R,K77T,G142D,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,D950N] (consensus)
AY.35           72      5   6.9%   1 [T19R,K77T,G142D,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,D808E,D950N] 
AY.35           72      2   2.8%   1 [T19R,K77T,G142D,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,D950N,P1263L] 
AY.35           72      1   1.4%   6 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,V622L,P681R,D796Y,N856K,A879S,D950N] 
AY.35           72      1   1.4%   2 [T19R,K77T,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,A684V,D950N] 

AY.46.3         63     13  20.6%   0 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.46.3         63      8  12.7%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.46.3         63      5   7.9%   3 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S704A,D936Y,D950N,V1264L] 
AY.46.3         63      4   6.3%   1 [T19R,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N] 
AY.46.3         63      4   6.3%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1264L] 

AY.43.7         62     42  67.7%   0 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S939F,D950N] (consensus)
AY.43.7         62      4   6.5%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S939F] 
AY.43.7         62      4   6.5%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S939F,D950N] 
AY.43.7         62      3   4.8%   1 [T19R,T33I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S939F,D950N] 
AY.43.7         62      1   1.6%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.58           61     25  41.0%   0 [T19R,G142D,E156G,F157-,R158-,A222V,S373P,L452R,T478K,D614G,P681R,D950N] 
AY.58           61     18  29.5%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.58           61      6   9.8%   2 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.58           61      2   3.3%   2 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,P479S,D614G,P681R,D950N] 
AY.58           61      1   1.6%   2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.99.1         59     16  27.1%   0 [T19R,G142D,E156G,F157-,R158-,D427G,L452R,T478K,D614G,P681R,D950N] 
AY.99.1         59     10  16.9%   2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.99.1         59      8  13.6%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.99.1         59      4   6.8%   3 [T19R,E156G,F157-,R158-,L452R,S459F,T478K,D614G,P681R,D950N] 
AY.99.1         59      3   5.1%   3 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N] 

AY.91           57     17  29.8%   0 [T19R,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.91           57     12  21.1%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.91           57     10  17.5%   1 [T19R,G142D,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R,D950N] 
AY.91           57      6  10.5%   2 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.91           57      4   7.0%   4 [T19R,G142D,E156G,F157-,R158-,Y200H,L212V,L452R,T478K,D614G,P681R,D950N] 

AY.65           57     27  47.4%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] (consensus)
AY.65           57      9  15.8%   1 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] 
AY.65           57      5   8.8%   3 [T19R,G142D,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] 
AY.65           57      2   3.5%   2 [T19R,T95I,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] 
AY.65           57      2   3.5%   2 [T19R,G142D,E156G,F157-,R158-,G184V,A222V,L452R,T478K,K558N,D614G,P681R,D950N,V1264L] 

AY.61           57     15  26.3%   0 [T19R,K77T,G142D,E156G,F157-,R158-,Q173H,L452R,T478K,D614G,P681R,D950N] 
AY.61           57      8  14.0%   4 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.61           57      6  10.5%   4 [T19R,P85S,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.61           57      6  10.5%   3 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.61           57      2   3.5%   6 [T19R,D138H,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,P812S,D820N,D950N] 

AY.94           54     12  22.2%   0 [T19R,G142D,E156G,F157-,R158-,L452R,A475V,T478K,D614G,P681R,D950N] 
AY.94           54     11  20.4%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.94           54      9  16.7%   2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.94           54      3   5.6%   3 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D808N,D950N] 
AY.94           54      3   5.6%   2 [T19R,G142D,E156G,F157-,R158-,D215Y,L452R,T478K,D614G,P681R,D950N] 

AY.64           54     31  57.4%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,K1191N] (consensus)
AY.64           54      7  13.0%   2 [T19R,G142D,E156G,F157-,R158-,F186L,A222V,T385I,L452R,T478K,D614G,P681R,D950N,K1191N] 
AY.64           54      3   5.6%   1 [T19R,A27S,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,K1191N] 
AY.64           54      2   3.7%   2 [L5F,T19R,G142D,H146L,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,K1191N] 
AY.64           54      2   3.7%   1 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,K1191N] 

AY.87           53     29  54.7%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.87           53      8  15.1%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.87           53      2   3.8%   1 [V11F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.87           53      1   1.9%   2 [T19R,E156G,F157-,R158-,S162G,L452R,T478K,D614G,P681R,D950N] 
AY.87           53      1   1.9%   3 [T19R,E156G,F157-,R158-,L452R,T478K,V512I,D614G,P681R,I834V,D950N] 

AY.9.2.1        48     38  79.2%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.9.2.1        48     10  20.8%   2 [T19R,G142D,E156G,F157-,R158-,A222V,S373L,G446V,L452R,T478K,D614G,P681R,D950N] 

AY.127.1        48     35  72.9%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T859N,D950N] (consensus)
AY.127.1        48      8  16.7%   3 [T19R,T95I,G142D,V143F,M153I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T859N,D936N,D950N] 
AY.127.1        48      3   6.2%   2 [T19R,T95I,G142D,M153I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.127.1        48      1   2.1%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T859N,D950N,G1099D] 
AY.127.1        48      1   2.1%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,R634H,P681R,T859N,D950N] 

AY.83           45     38  84.4%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.83           45      1   2.2%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1058R] 
AY.83           45      1   2.2%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,V615F,P681R,D950N] 
AY.83           45      1   2.2%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.83           45      1   2.2%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

B.1.637.1       41     41 100.0%   0 [H69-,V70-,D80G,E96Q,Y144-,F157S,L244-,H245Y,R246-,S247-,Y248-,A264V,G446R,L452R,T478R,D614G,P681R,T859N,D936H,D950H,N978S] (consensus)

AY.67           41     26  63.4%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.67           41      4   9.8%   3 [T19R,G142D,E156G,F157-,R158-,A222V,A262S,L452R,T478K,D614G,P681R,D950N] 
AY.67           41      3   7.3%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.67           41      2   4.9%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1085R] 
AY.67           41      1   2.4%   2 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 

AY.46.6.1       41     26  63.4%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.46.6.1       41     10  24.4%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.46.6.1       41      1   2.4%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.46.6.1       41      1   2.4%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,H655Y,P681R,D950N] 
AY.46.6.1       41      1   2.4%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,E1262A] 

AY.89           41     13  31.7%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.89           41     11  26.8%   1 [L18F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.89           41      5  12.2%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,C1236F] 
AY.89           41      2   4.9%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D936H,D950N] 
AY.89           41      1   2.4%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812S,D950N,V1104L] 

AY.120.2        41     14  34.1%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D796N,D950N] 
AY.120.2        41     13  31.7%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.120.2        41      9  22.0%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S689N,D950N] 
AY.120.2        41      2   4.9%   5 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,N1074S,V1264L] 
AY.120.2        41      1   2.4%   3 [T19R,T95I,G142D,E156G,F157-,R158-,Q183E,L452R,T478K,D614G,P681R,S689N,D950N] 

AY.88           38     24  63.2%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.88           38      2   5.3%   2 [T19R,G75V,G142D,E156G,F157-,R158-,L452R,T478K,S494P,D614G,P681R,D950N] 
AY.88           38      2   5.3%   1 [T19R,G75V,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.88           38      1   2.6%   5 [L452R,T478K,D614G,P681R,D950N] 
AY.88           38      1   2.6%   1 [G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.77           38     15  39.5%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.77           38      3   7.9%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.77           38      3   7.9%   3 [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,D950N] 
AY.77           38      3   7.9%   2 [V3A,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.77           38      3   7.9%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,G482R,D614G,P681R,D950N] 

AY.105          37     12  32.4%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.105          37      6  16.2%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1191N] 
AY.105          37      6  16.2%   1 [T19R,T95I,G142D,E156G,F157-,R158-,R214L,L452R,T478K,D614G,P681R,D950N] 
AY.105          37      4  10.8%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.105          37      2   5.4%   2 [S12F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1191N] 

AY.33.1         37     30  81.1%   0 [T19R,T29A,H49Y,G142D,E156G,F157-,R158-,T250I,T299I,L452R,T478K,Q613H,D614G,E654K,P681R,D950N] (consensus)
AY.33.1         37      2   5.4%   1 [T19R,T29A,H49Y,E156G,F157-,R158-,T250I,T299I,L452R,T478K,Q613H,D614G,E654K,P681R,D950N] 
AY.33.1         37      1   2.7%   1 [T19R,T29A,H49Y,G142D,E156G,F157-,R158-,T250I,T299I,L452R,T478K,Q613H,D614G,E654K,P681R,D950N,G1246S] 
AY.33.1         37      1   2.7%   1 [T19R,T29A,H49Y,V62L,G142D,E156G,F157-,R158-,T250I,T299I,L452R,T478K,Q613H,D614G,E654K,P681R,D950N] 
AY.33.1         37      1   2.7%   1 [F4I,T19R,T29A,H49Y,G142D,E156G,F157-,R158-,T250I,T299I,L452R,T478K,Q613H,D614G,E654K,P681R,D950N] 

AY.37           35      9  25.7%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,P479S,D614G,P681R,G798S,D950N] 
AY.37           35      9  25.7%   3 [T19R,G142D,E156G,F157-,R158-,A222V,V367L,L452R,T478K,D614G,P681R,D950N] 
AY.37           35      5  14.3%   2 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.37           35      2   5.7%   4 [T19R,G142D,E156G,F157-,R158-,A222V,V367L,L452R,T478K,D614G,P681R,D950N,L1203F] 
AY.37           35      2   5.7%   4 [L5F,T19R,G142D,E156G,F157-,R158-,A222V,V367L,L452R,T478K,D614G,P681R,D950N] 

AY.99           34     23  67.6%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.99           34      3   8.8%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,E780K,D950N] 
AY.99           34      2   5.9%   1 [T19R,G142D,E156G,F157-,R158-,P330S,L452R,T478K,D614G,P681R,D950N] 
AY.99           34      2   5.9%   4 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A845V,G932V] 
AY.99           34      1   2.9%   5 [T19R,E156-,F157-,R158G,L452R,T478K,D614G,P681R,G932V] 

AY.102.2        34     16  47.1%   0 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.102.2        34      5  14.7%   1 [T19R,T95I,E156G,F157-,R158-,T259A,L452R,T478K,D614G,P681R,D950N] 
AY.102.2        34      3   8.8%   1 [T19R,T95I,E156G,F157-,R158-,A264S,L452R,T478K,D614G,P681R,D950N] 
AY.102.2        34      2   5.9%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.102.2        34      2   5.9%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1264A] 

AY.60           33     18  54.5%   0 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.60           33      5  15.2%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 
AY.60           33      2   6.1%   1 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,M1237I] 
AY.60           33      2   6.1%   1 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,S939F,D950N] 
AY.60           33      1   3.0%   3 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D808E,K921R,D950N,V1177L] 

AY.20.1         32     13  40.6%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] (consensus)
AY.20.1         32      6  18.8%   1 [T19R,T95I,G142D,E156G,F157-,R158-,G446V,L452R,T478K,D614G,P681R,D950N,V1104L] 
AY.20.1         32      5  15.6%   2 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N,V1104L] 
AY.20.1         32      2   6.2%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N,V1104L] 
AY.20.1         32      2   6.2%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] 

B.1.1           29     15  51.7%   0 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,T547K,D614G,H655Y,N679K,P681H,N856K,Q954H,N969K,L981F] (consensus)
B.1.1           29      3  10.3%   5 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,T547K,D614G,N764K,D796Y,N856K,Q954H,N969K,L981F] 
B.1.1           29      2   6.9%  16 [D138N,D614G,P681H] 
B.1.1           29      1   3.4%  14 [N856K,Q954H,N969K] 
B.1.1           29      1   3.4%   6 [A67V,H69-,V70-,T95I,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] 

AY.5.5          29     26  89.7%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.5.5          29      1   3.4%   5 [T95I,G142D,L452R,T478K,D614G,P681R,D950N] 
AY.5.5          29      1   3.4%   4 [T19R,H69-,V70-,G142D,W152L,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1219C] 
AY.5.5          29      1   3.4%   3 [T19R,H69-,V70-,G142D,Y144-,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.25.1.1       29     19  65.5%   0 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D796Y,D950N] (consensus)
AY.25.1.1       29      3  10.3%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D796Y,D950N] 
AY.25.1.1       29      2   6.9%   1 [T19R,E156G,F157-,R158-,S373P,L452R,T478K,D614G,P681R,D796Y,D950N] 
AY.25.1.1       29      2   6.9%   1 [T19R,E156G,F157-,R158-,V367L,L452R,T478K,D614G,P681R,D796Y,D950N] 
AY.25.1.1       29      1   3.4%   2 [T19R,E156G,F157-,R158-,L452R,T478K,P479L,D614G,P681R,D796Y,S940F,D950N] 

AY.68           29     13  44.8%   0 [T19R,G142D,E156G,F157-,R158-,A222V,D253A,L452R,T478K,D614G,P681R,P809S,D950N,D979E] (consensus)
AY.68           29      2   6.9%   1 [T19R,E156G,F157-,R158-,A222V,D253A,L452R,T478K,D614G,P681R,P809S,D950N,D979E] 
AY.68           29      2   6.9%   1 [T19R,P26S,G142D,E156G,F157-,R158-,A222V,D253A,L452R,T478K,D614G,P681R,P809S,D950N,D979E] 
AY.68           29      2   6.9%   4 [T19R,E156G,F157-,R158-,N211K,A222V,D253A,V267L,L452R,T478K,D614G,P681R,D950N,D979E] 
AY.68           29      1   3.4%   3 [T19R,I100L,G142D,M153I,E156G,F157-,R158-,A222V,D253A,L452R,T478K,D614G,P681R,D950N,D979E] 

AY.81           27     20  74.1%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A694V,D950N,D1260Y] (consensus)
AY.81           27      3  11.1%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1260Y] 
AY.81           27      2   7.4%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A694V,M731I,D950N,D1260Y] 
AY.81           27      1   3.7%   1 [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A694V,D950N,D1260Y] 
AY.81           27      1   3.7%   3 [T19R,H69-,V70-,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A694V,D950N,D1260Y] 

AY.29.1         25     10  40.0%   0 [T19R,T95I,G142D,E156G,F157-,R158-,Q173H,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.29.1         25      3  12.0%   1 [T19R,T95I,G142D,E156G,F157-,R158-,Q173H,D215Y,L452R,T478K,D614G,P681R,D950N] 
AY.29.1         25      2   8.0%   1 [T19R,T95I,G142D,E156G,F157-,R158-,Q173H,L452R,T478K,D614G,P681R,D950N,T1120I] 
AY.29.1         25      1   4.0%   2 [T19R,T95I,G142D,E156G,F157-,R158-,Q173H,L452R,T478K,P499H,D614G,P681R,Q935R,D950N] 
AY.29.1         25      1   4.0%   1 [T19R,T95I,E156G,F157-,R158-,Q173H,L452R,T478K,D614G,P681R,D950N] 

B               22     11  50.0%   0 [] (consensus)
B               22      2   9.1%   1 [D950N] 
B               22      1   4.5%   2 [T95I,S247R] 
B               22      1   4.5%   3 [D614G,P681R,D950N] 
B               22      1   4.5%   1 [T19R] 

B.1.1.7         22      9  40.9%   0 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] (consensus)
B.1.1.7         22      3  13.6%   2 [H69-,V70-,Y144-,W152R,Q493R,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] 
B.1.1.7         22      3  13.6%   1 [L5F,H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] 
B.1.1.7         22      2   9.1%   2 [H69-,V70-,Y144-,S325F,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H,K1191N] 
B.1.1.7         22      2   9.1%   1 [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H,I1183V] 

AY.4.1          21     16  76.2%   0 [T19R,T95I,G142D,E156G,F157-,R158-,G446V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.4.1          21      4  19.0%   3 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1139N] 
AY.4.1          21      1   4.8%   1 [T19R,T95I,G142D,E156G,F157-,R158-,G446V,L452R,T478K,D614G,P681R,D950N,G1124V] 

AY.3.2          17     10  58.8%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.3.2          17      2  11.8%   2 [T19R,G142D,E156G,F157-,R158-,T259I,L452R,T478K,D614G,P681R,A942T,D950N] 
AY.3.2          17      1   5.9%   3 [T19R,E156G,F157-,R158-,T259I,L452R,T478K,D614G,P681R,A942T,D950N] 
AY.3.2          17      1   5.9%   4 [L5F,T19R,E156G,F157-,R158-,T259I,L452R,T478K,D614G,P681R,A942T,D950N] 
AY.3.2          17      1   5.9%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.5.1          16     12  75.0%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.5.1          16      2  12.5%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T859I,D950N] 
AY.5.1          16      1   6.2%   2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1259Y] 
AY.5.1          16      1   6.2%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1219C] 

BA.3            15     13  86.7%   0 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211I,L212-,G339D,S371F,S373P,S375F,D405N,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] (consensus)
BA.3            15      1   6.7%   5 [A67V,H69-,V70-,T95I,L141F,N211I,L212-,G339D,S371F,S373P,S375F,D405N,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] 
BA.3            15      1   6.7%   1 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211I,L212-,A222V,G339D,S371F,S373P,S375F,D405N,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,N679K,P681H,N764K,D796Y,Q954H,N969K] 

AY.95           15      4  26.7%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1167V] 
AY.95           15      2  13.3%   4 [T19R,T95I,G142D,E156G,F157-,R158-,N211Y,L452R,T478K,D614G,P681R,A688V,D950N] 
AY.95           15      2  13.3%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.95           15      2  13.3%   3 [T19R,G142D,E156G,F157-,R158-,L244S,L452R,T478K,T572I,D614G,P681R,D950N] 
AY.95           15      1   6.7%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)

AY.5.2          15      9  60.0%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.5.2          15      6  40.0%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

AY.22           15      8  53.3%   0 [T19R,T95I,G142D,E156G,F157-,R158-,Q218H,L452R,T478K,D614G,P681R,D950N,V1104L] (consensus)
AY.22           15      2  13.3%   4 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,Q677H,P681R,D950N] 
AY.22           15      2  13.3%   2 [T19R,T95I,G142D,M153T,E156G,F157-,R158-,Q218H,L452R,T478K,D614G,P681R,A688V,D950N,V1104L] 
AY.22           15      1   6.7%   4 [T19R,S112L,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.22           15      1   6.7%   1 [T19R,T95I,G142D,E156G,F157-,R158-,Q218H,L452R,T478K,D614G,P681R,A688V,D950N,V1104L] 

AY.120.2.1      15      7  46.7%   0 [T19R,H66Y,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.120.2.1      15      4  26.7%   1 [T19R,H66Y,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,C1248F] 
AY.120.2.1      15      2  13.3%   1 [T19R,H66Y,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.120.2.1      15      1   6.7%   2 [T19R,H66Y,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R] 
AY.120.2.1      15      1   6.7%   1 [T19R,H66Y,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A879S,D950N] 

B.1.258.17      14     11  78.6%   0 [H69-,V70-,L189F,N439K,D614G,V772I] (consensus)
B.1.258.17      14      1   7.1%   1 [L54F,H69-,V70-,L189F,N439K,D614G,V772I] 
B.1.258.17      14      1   7.1%   1 [H69-,V70-,L189F,I197V,N439K,D614G,V772I] 
B.1.258.17      14      1   7.1%   1 [H69-,V70-,L189F,N439K,D614G,V772I,Q836L] 

AY.102.1        14      3  21.4%   0 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1219V] (consensus)
AY.102.1        14      3  21.4%   1 [T19R,T95I,E156G,F157-,R158-,I233V,L452R,T478K,D614G,P681R,D950N,G1219V] 
AY.102.1        14      2  14.3%   5 [T19R,T95I,E156G,F157-,R158-,G261A,A262-,A263-,+283TI,L452R,T478K,D614G,P681R,D950N,G1219V] 
AY.102.1        14      2  14.3%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1219V] 
AY.102.1        14      1   7.1%   1 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,T588A,D614G,P681R,D950N,G1219V] 

B.1.466.2       13      7  53.8%   0 [N439K,D614G,P681R] (consensus)
B.1.466.2       13      1   7.7%   1 [N439K,D614G,P681R,S1252F] 
B.1.466.2       13      1   7.7%   1 [L5F,N439K,D614G,P681R] 
B.1.466.2       13      1   7.7%   1 [N439K,D614G,P681R,T1076I] 
B.1.466.2       13      1   7.7%   1 [N439K,D614G,P681R,P1162S] 

AY.56           13     12  92.3%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,S680F,P681R,D950N] (consensus)
AY.56           13      1   7.7%   5 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,V622F,P681R,D950N] 

B.1.1.10        12      1   8.3%   0 [T95I,G142D,V143-,Y144-,Y145-,L452R,T478K,D614G,P681R,D796Y,N856K,Q954H,N969K,L981F] 
B.1.1.10        12      1   8.3%   7 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,L452R,T478K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] 
B.1.1.10        12      1   8.3%   8 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,L452R,T478K,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] 
B.1.1.10        12      1   8.3%  10 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,E156G,F157-,R158-,L452R,T478K,T547K,D614G,H655Y,N679K,P681H,D796Y,N856K,Q954H,N969K,L981F] 
B.1.1.10        12      1   8.3%  16 [T19R,A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,E156G,F157-,R158-,G339D,R346K,T478K,D614G,H655Y,N679K,P681H,N856K,Q954H] 

AY.62           12      7  58.3%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.62           12      1   8.3%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,N978S] 
AY.62           12      1   8.3%   2 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,A706S,D950N,V1264L] 
AY.62           12      1   8.3%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,G1219V] 
AY.62           12      1   8.3%   3 [T19R,Y144-,H146Y,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] 

P.1.12.1        11     11 100.0%   0 [L18F,T20N,P26S,D138Y,R190S,R246G,T284I,K417T,E484K,N501Y,D614G,H655Y,N679K,T1027I,V1176F] (consensus)

B.1.1.519       11      1   9.1%   0 [T19R,A67V,T95I,Y144-,+214EPE,G339D,S375F,K417N,N440K,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681R] 
B.1.1.519       11      1   9.1%  11 [T95I,G339D,S371L,S373P,S375F,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,P681H] 
B.1.1.519       11      1   9.1%  19 [G142D,E156G,F157-,R158-,S371L,S373P,S375F,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,D614G,P681H] 
B.1.1.519       11      1   9.1%  18 [T19R,T95I,G142D,E156G,F157-,R158-,S371L,S373P,S375F,N440K,G446S,S477N,T478K,E484A,Q493R,Q498R,N501Y,Y505H,D614G,H655Y,P681H] 
B.1.1.519       11      1   9.1%  27 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,L452R,T478K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] 

AY.53           10      3  30.0%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.53           10      2  20.0%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.53           10      2  20.0%   3 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,E1150D] 
AY.53           10      1  10.0%   5 [T19R,L452R,T478K,D614G,P681R,D950N] 
AY.53           10      1  10.0%   2 [T19R,A27S,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 

C.37            10      3  30.0%   0 [G75V,T76I,R246N,S247-,Y248-,L249-,T250-,P251-,G252-,D253-,L452Q,F490S,D614G,P792L,T859N] 
C.37            10      1  10.0%  12 [G75V,T76I,Y144-,A262V,L452Q,F490S,D614G,P681R,T859N] 
C.37            10      1  10.0%   3 [G75V,T76I,N121D,R246N,S247-,Y248-,L249-,T250-,P251-,G252-,D253-,L452Q,F490S,T572I,D614G,T859N] 
C.37            10      1  10.0%   4 [T22I,G75V,T76I,L176F,N185Y,R246N,S247-,Y248-,L249-,T250-,P251-,G252-,D253-,L452Q,F490S,D614G,T859N] 
C.37            10      1  10.0%   9 [T19I,H69-,V70-,S71F,G75V,T76I,T95I,R246N,S247-,Y248-,L249-,T250-,P251-,G252-,D253-,L452Q,V595I,D614G,N679K,T859N] 

AY.71           10      7  70.0%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,Q677H,P681R,D950N] (consensus)
AY.71           10      1  10.0%   4 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,S1252F] 
AY.71           10      1  10.0%   6 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,S1252F] 
AY.71           10      1  10.0%   7 [N17K,L18F,T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,P499R,D614G,P681R,D950N,V1264L] 

AY.48            8      2  25.0%   0 [T19R,E156G,F157-,R158-,L452R,T478K,T547I,D614G,P681R,D950N] (consensus)
AY.48            8      2  25.0%   2 [T19R,K77T,G142D,E156G,F157-,R158-,L452R,T478K,T547I,D614G,P681R,D950N] 
AY.48            8      1  12.5%   3 [T19R,L452R,T478K,T547I,D614G,P681R,D950N] 
AY.48            8      1  12.5%   1 [E156G,F157-,R158-,L452R,T478K,T547I,D614G,P681R,D950N] 
AY.48            8      1  12.5%   5 [T19R,G75V,T95I,E156G,F157-,R158-,W258L,K417N,L452R,T478K,D614G,P681R,D950N] 

BB.1             7      4  57.1%   0 [T95I,Y144N,Y145-,R346K,Y449N,E484K,N501Y,E583D,D614G,P681H,D950N] (consensus)
BB.1             7      2  28.6%   1 [T95I,Y144N,Y145-,W152L,R346K,Y449N,E484K,N501Y,E583D,D614G,P681H,D950N] 
BB.1             7      1  14.3%   2 [T95I,Y144N,Y145-,R346K,Y449N,E484K,N501Y,T573I,E583D,D614G,P681H,A688S,D950N] 

AY.49            7      2  28.6%   0 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,Q493R,D614G,P681R,D950N] 
AY.49            7      1  14.3%  13 [T19R,T95I,G142D,V143D,Y144-,N211-,L212I,+214EPE,N440K,L452R,T478K,Q498R,D614G,P681R,D950N] 
AY.49            7      1  14.3%   2 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,Q498R,D614G,P681R,D950N] 
AY.49            7      1  14.3%   2 [T19R,T95I,G142D,E156G,F157-,R158-,T299-,L452R,T478K,D614G,P681R,D950N] 
AY.49            7      1  14.3%   1 [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)

AY.26.1          7      5  71.4%   0 [T19R,E156G,F157-,R158-,A222V,L452R,T478K,E484Q,D614G,P681R,D950N,T1009S,V1264L] (consensus)
AY.26.1          7      2  28.6%   1 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,E484Q,D614G,P681R,D950N,T1009S,V1264L] 

A                6      5  83.3%   0 [I68K,H69-,V70-,S71-,G72-,T73-,N74-,G75R,T76-,K77-,R78-,N679-,S680-,P681S,R682-,R683-,A684-,R685-,S686-,V687-,A688-,S689-] (consensus)
A                6      1  16.7%  22 [] 

P.1.12           6      3  50.0%   0 [L18F,T20N,P26S,D138Y,R190S,R246G,K417T,E484K,N501Y,D614G,H655Y,N679K,T1027I,V1176F] (consensus)
P.1.12           6      2  33.3%   6 [L18F,T20N,P26S,D138Y,R246G,G261A,A262-,A263-,+284II,K417T,E484K,N501Y,D614G,H655Y,N679K,T1027I,V1176F] 
P.1.12           6      1  16.7%   1 [L18F,T20N,P26S,S98F,D138Y,R190S,R246G,K417T,E484K,N501Y,D614G,H655Y,N679K,T1027I,V1176F] 

AY.2             6      2  33.3%   0 [T19R,V70F,G142D,E156G,F157-,R158-,A222V,K417N,L452R,T478K,D614G,P681R,D950N,V1228L] 
AY.2             6      2  33.3%   3 [T19R,V70F,G142D,E156G,F157-,R158-,I210V,A222V,K417N,N439K,L452R,T478K,D614G,P681R,D950N] 
AY.2             6      1  16.7%   1 [T19R,V70F,G142D,E156G,F157-,R158-,A222V,K417N,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.2             6      1  16.7%   4 [T19R,V70F,G142D,E156G,F157-,R158-,I210V,A222V,K417N,N439K,L452R,T478K,D614G,P681R,D950N,L1200F] 

B.1              5      2  40.0%   0 [L452R,T478K,D614G,P681R,D950N] (consensus)
B.1              5      1  20.0%   2 [T19R,T478K,D614G,P681R,D950N] 
B.1              5      1  20.0%  17 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,T547K,D614G,N856K,Q954H,N969K,L981F] 
B.1              5      1  20.0%   3 [T19R,L452R,T478K,P479S,D614G,P681R] 

B.1.621          5      3  60.0%   0 [T95I,+143T,Y144S,Y145N,R346K,E484K,N501Y,D614G,P681H,D950N] (consensus)
B.1.621          5      1  20.0%   5 [T95I,Y144N,Y145-,R346K,Y449N,E484K,N501Y,E583D,D614G,P681H,D950N] 
B.1.621          5      1  20.0%   3 [L5F,T95I,G142R,+143T,Y144S,Y145N,R346K,N394D,E484K,N501Y,D614G,P681H,D950N] 

AY.91.1          5      2  40.0%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.91.1          5      1  20.0%   2 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.91.1          5      1  20.0%   1 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.91.1          5      1  20.0%   1 [T19R,G142D,E156G,F157-,R158-,T323I,L452R,T478K,D614G,P681R,D950N] 

AY.96            5      2  40.0%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] 
AY.96            5      1  20.0%   2 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,G932V,D950N] 
AY.96            5      1  20.0%   3 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S704L] 
AY.96            5      1  20.0%   3 [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,Q836L] 

AY.38            5      5 100.0%   0 [T19R,G142D,E156G,F157-,R158-,A222V,V289I,L452R,T478K,D614G,P681R,D950N] (consensus)

P.1              4      1  25.0%   0 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,P600T,D614G,H655Y,G669D,I670-,C671-,A672-,S673-,Y674-,Q675-,T676-,Q677-,T678-,N679-,T1027I,V1176F] 
P.1              4      1  25.0%  12 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F] (consensus)
P.1              4      1  25.0%  14 [L18F,T20N,P26S,R190S,K417T,E484K,N501Y,D614G,H655Y,V1176F] 
P.1              4      1  25.0%  14 [L18F,T20N,P26S,D138Y,R190S,L216F,K417T,E484K,N501Y,D614G,H655Y,P681R,T1027I,V1176F] 

P.1.7.1          4      4 100.0%   0 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,P681H,T1027I,V1176F] (consensus)

AY.23.2          4      2  50.0%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,E702V,D950N,V1264L] (consensus)
AY.23.2          4      1  25.0%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,E702V,T716I,D950N,V1264L] 
AY.23.2          4      1  25.0%   4 [T19R,K77E,E156G,F157-,R158-,L452R,T478K,D614G,P681R,E702V] 

AY.82            4      3  75.0%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.82            4      1  25.0%   1 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,L513F,D614G,P681R,D950N] 

B.1.438.1        3      1  33.3%   0 [L244F,H245-,S477N,G504D,D614G,H655Y,Q675H,D737Y,D796Y] 
B.1.438.1        3      1  33.3%  13 [P25T,G232S,H245Y,Y453F,E484K,Q493E,D614G,Q675H,K814R] 
B.1.438.1        3      1  33.3%  23 [T19I,F140-,L141-,G142-,V143-,Y144-,R190S,D215H,T299I,R346S,P384L,E406Q,L455F,E484K,F490S,G504S,D614G,Q675H,T761I] 

B.1.1.33         3      2  66.7%   0 [T478K,D614G,P681R,D950N] (consensus)
B.1.1.33         3      1  33.3%   2 [T95I,T478K,D614G,P681R] 

B.1.351          3      1  33.3%   0 [L18F,D80A,D215G,T240-,L241-,L242-,K417N,E484K,N501Y,Y505H,D614G,A701V,R905C,T1105P] 
B.1.351          3      1  33.3%  16 [L5F,D80A,T95N,R102S,N211K,L212-,D215G,L242-,A243-,L244-,R346G,K417N,E484K,N501Y,D614G,P681R,A701V,N764K] 
B.1.351          3      1  33.3%  10 [D80A,D215G,L242-,A243-,L244-,P384L,K417N,E484K,N501Y,D614G,A701V,Q1142L] 

AY.19            3      2  66.7%   0 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1153Y] (consensus)
AY.19            3      1  33.3%   4 [T19R,T95I,G142D,V143-,Y144-,Y145-,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1153Y] 

B.1.497          3      1  33.3%   0 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] 
B.1.497          3      1  33.3%   6 [A67V,T95I,G142D,V143-,Y144-,Y145-,N211I,L212-,L452R,T478K,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F] 
B.1.497          3      1  33.3%  14 [A67V,H69-,V70-,T95I,G142D,E156G,F157-,R158-,G339D,S371L,S373P,S375F,L452R,T478K,D614G,H655Y,N679K,P681H,D796Y,N856K,Q954H,N969K,L981F] 

B.1.640.2        3      2  66.7%   0 [L5F,P9L,E96Q,C136-,N137-,D138-,P139-,F140-,L141-,G142-,V143-,Y144-,R190S,D215H,R346S,N394S,Y449N,E484K,F490S,N501Y,D614G,P681H,T859N,D1139H] (consensus)
B.1.640.2        3      1  33.3%   7 [P9L,T95I,E96Q,C136-,N137-,D138-,P139-,F140-,L141-,G142-,V143-,Y144-,R190S,I210T,R346S,N394S,Y449N,E484K,F490S,Q498R,N501Y,D614G,P681H,T859N,D936H,D1139H,L1200F] 

B.1.1.70         2      1  50.0%   0 [D614G] (consensus)
B.1.1.70         2      1  50.0%   1 [P330S,D614G] 

B.1.149          2      2 100.0%   0 [D614G] (consensus)

B.1.221          2      2 100.0%   0 [S98F,D614G] (consensus)

B.1.240          2      1  50.0%   0 [D614G] (consensus)
B.1.240          2      1  50.0%  22 [Q52H,L141-,G142-,V143-,Y144-,L176F,R214H,A222V,P230Q,L242-,A243-,L244-,N354D,L452R,E484A,N501T,N603S,D614G,N658D,Q677H,R683Q,F1103L,V1176F] 

B.1.609          2      1  50.0%   0 [L5F,L176F,T478R,D614G] (consensus)
B.1.609          2      1  50.0%   9 [H49D,G142D,L452R,T478K,D614G,P681R,D950N,V1104L] 

B.1.1.318        2      2 100.0%   0 [D80Y,T95I,Y144-,A243S,E484K,D614G,P681H,D796H,T859I] (consensus)

B.1.526          2      1  50.0%   0 [L5F,T95I,D253G,A262S,E484K,D614G,A701V] (consensus)
B.1.526          2      1  50.0%  11 [L5F,I68N,H69-,V70-,S71-,G72-,T73-,N74-,T95I,G142-,Y144D,D253G,Y449S,E484K,D614G,A701V] 

B.1.177.77       2      1  50.0%   0 [Q14-,C15-,V16-,N17-,L18-,S50L,K97E,Y144-,Y145H,A222V,F490L,D614G,S704A,S735A,D737E,I1115L] (consensus)
B.1.177.77       2      1  50.0%   6 [Q14-,C15-,V16-,N17-,L18-,S50L,K97E,L141-,G142-,V143-,Y144-,A222V,F490L,D614G,D737E,I1115L] 

P.1.15           2      1  50.0%   0 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,E583Q,D614G,H655Y,T1027I,V1176F] (consensus)
P.1.15           2      1  50.0%  29 [N17D,H69-,V70-,K147E,D215G,R346S,K417T,V445A,L452Q,N460K,E484A,F486L,Q498Y,N501T,Y505H,D614G,V642G,Q675R,K795R,L828F,D1153A,V1176F,K1181E,K1266N] 

P.1.7            2      1  50.0%   0 [L18F,T20N,P26S,W152L,R190S,K417T,E484K,N501Y,D614G,H655Y,P681H,T1027I,V1176F] (consensus)
P.1.7            2      1  50.0%   3 [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,P681H,A845S,T1027I,V1176F] 

B.1.258          2      2 100.0%   0 [H69-,V70-,N439K,D614G] (consensus)

B.1.551          2      1  50.0%   0 [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,T547K,D614G,H655Y,N679K,P681H,N764K,N856K,Q954H,N969K,L981F] (consensus)
B.1.551          2      1  50.0%  21 [L5F,T19R,T478K,D614G,P681R,D950N] 

AY.15            2      1  50.0%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)
AY.15            2      1  50.0%  12 [T19R,T22I,A67V,H69-,V70-,G142D,E156G,F157-,R158-,G339D,S371L,S373P,S375F,L452R,T478K,D614G,P681R,N856K,D950N,Q954H,N969K,L981F] 

AY.63            2      2 100.0%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] (consensus)

AY.50            2      2 100.0%   0 [T19R,M153I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] (consensus)

B.1.2            1      1 100.0%   0 [D614G] (consensus)

B.1.36.19        1      1 100.0%   0 [D614G] (consensus)

B.1.1.47         1      1 100.0%   0 [D198G,Q613H,D614G] (consensus)

B.1.1.228        1      1 100.0%   0 [D614G] (consensus)

B.1.429          1      1 100.0%   0 [S13I,W152C,L452R,D614G] (consensus)

B.1.160          1      1 100.0%   0 [S477N,D614G] (consensus)

B.1.367          1      1 100.0%   0 [D80Y,D614G] (consensus)

B.1.637          1      1 100.0%   0 [A67D,T95I,L452R,E484K,D614G,P681H,H1088R,D1118H] (consensus)

AZ.5             1      1 100.0%   0 [D80Y,T95I,Y144-,W258L,E484K,D614G,P681H,D796H] (consensus)

C.1.2            1      1 100.0%   0 [P9L,P25L,C136F,Y144-,W152R,R190S,D215G,A243-,L244-,Y449H,T478K,E484K,N501Y,D614G,H655Y,N679K,T716I,T859N,A879T] (consensus)

B.1.621.1        1      1 100.0%   0 [T95I,+143T,Y144S,Y145N,R346K,E484K,N501Y,D614G,P681H,D950N] (consensus)

B.1.617.1        1      1 100.0%   0 [T95I,G142D,E154K,L452R,E484Q,D614G,P681R,Q1071H] (consensus)

AY.16.1          1      1 100.0%   0 [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S689I,A701V,D950N] (consensus)

AY.55            1      1 100.0%   0 [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,A1087S] (consensus)

AY.8             1      1 100.0%   0 [V16F,T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] (consensus)

AY.11            1      1 100.0%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1167V] (consensus)

AY.18            1      1 100.0%   0 [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1199N] (consensus)

AY.17            1      1 100.0%   0 [T19R,G142D,E156G,F157-,R158-,I210-,L452R,T478K,D614G,P681R,D950N,Q1113L] (consensus)

 

last modified: Sun Aug 29 01:25 2021



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