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Embers

Embers: follow emergent SARS-CoV-2 variants over time

Run Geographically Restricted Embers
Last update: Feb 3, 2023

Dates of current data


Delta and Omicron Variants
Global
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Frequencies of Key Pango Lineage Groupings Over Time

Variants and Counts
                                                                                             1111
               1111111111222222222222222222222222223333334444444444444455556666667777788999990112
1122222266777893444455559111111111112444444455555893477770014457788999900471577780016955556882176
8904567979056058234526780122223444452234678901238999613565870627846036815704557911464669049127864
LTTLPPATAHVGTDTDGVYYWEFRRNL---VR---DALALRSYLTPGDWVTGRSSSTDRKNGLSTEFFQGQNYTADHQQNPASTNDNTDQNLSTDVV Counts Percent Lineage
.I..............D..........SGRG.---................D.FPFANSNK._NKA..R.RYH..GY..KH...KY...HK......      3   0.00% Omicron_BA.2+212SGR               
.I.........................---G.---................D.FPFANSNK.RNKAV._.RYH..GY..KH...KY...HK...... 1008180  85.78% Omicron_BA.4andBA.5               
.I..............D..........---G.---................D.FPFANSNK.QNKA..R.RYH..GY..KH.L.KY...HK......   1849   0.16% Omicron_BA.2+L452Q+S704L_BA.2.12.1
.I..__..........D..........---G.---................D.FPFANSNK._NKA..R.RYH..GY..KH...KY...HK......      5   0.00% Omicron_BA.2+P25_,P26_            
.I..--..........D..........---G.---................D.FPFANSN..MNKA..R.RYH..GY..KH...KY...HK......    301   0.03% Omicron_BA.2+L452M                
.I..............D..........---G.---................D.FPFANSTK..NKA..R.RYH..GY..KH...KY...HK......    349   0.03% Omicron_BA.2+K417T                
.I..--..........D..........---G.---................D.FPFANSN.._NKA..R.RYH..GY..KH...KY...HK......   2400   0.20% Omicron_BA.2                      
........V--...I............---..---................DKLPF.........A..R.RYH..GY..KH...KY...HK......     95   0.01% Omicron_BA.1.1                    
........V--...I............---..---................D_.PF___..._..A..R.RYHK.GY..KH...KYK..HKF.....     10   0.00% Omicron_BA.1                      
........V--...I............---..EPE................D_.PF......_..A..R.RYH..GY..KH...KY...HK......     57   0.00% Omicron_BA.1                      
.R........_..........--G...---..---............._.........._..R.K..........G...*........N........      0   0.00% Delta+FurinRelated                
.R........_..........--G...---..---............._.........._..R.K..........G..*.........N........      0   0.00% Delta+FurinRelated                
.R........_..........--G...---..---............._.........._..R.K..........G.*..........N........      0   0.00% Delta+FurinRelated                
.R........_..........--G...---..---............._.........._..R.K..........G....H.......N........      0   0.00% Delta+FurinRelated                
.R........_..........--G...---..---............._.........._..R.K..........GY...........N........      0   0.00% Delta+FurinRelated                
.R........_..........G--...---..---............._.........._..R.K..........G...*........N........      0   0.00% Delta+FurinRelated                
.R........_..........G--...---..---............._.........._..R.K..........G..*.........N........      1   0.00% Delta+FurinRelated                
.R........_..........G--...---..---............._.........._..R.K..........G.*..........N........      0   0.00% Delta+FurinRelated                
.R........_..........G--...---..---............._.........._..R.K..........G....H.......N........      0   0.00% Delta+FurinRelated                
.R........_..........G--...---..---............._.........._..R.K..........GY...........N........      0   0.00% Delta+FurinRelated                
.R........_...I....H.G--...---..---.V..........._.........._..R.K..........G____R.......N........      0   0.00% Delta+Y145H,A222V                 
.R........_...I....H.--G...---..---.V..........._.........._..R.K..........G____R.......N........      0   0.00% Delta+Y145H,A222V                 
.R........_..._......G--...---..---.V...........__........._..R.K..........G____R.......N......._      1   0.00% Delta+T95_,A222V                  
.R........_..._......--G...---..---.V...........__........._..R.K..........G____R.......N......._      0   0.00% Delta+T95_,A222V                  
.R....._.._..........G--...---..---._.......__.._._........_..R.K_.........G____R.......N......._     30   0.00% Delta                             
.R....._.._..........--G...---..---._.......__.._._........_..R.K_.........G____R.......N......._      0   0.00% Delta                             
........................S..---..---..............................K.....Y...GY...*..............F.      0   0.00% Gamma+FurinRelated                
........................S..---..---..............................K.....Y...GY..*...............F.      0   0.00% Gamma+FurinRelated                
........................S..---..---..............................K.....Y...GY.*................F.      0   0.00% Gamma+FurinRelated                
........................S..---..---..............................K.....Y...GY*.................F.      0   0.00% Gamma+FurinRelated                
........................S..---..---..............................K.....Y...GY____..............F.      0   0.00% Gamma                             
..............I...SN.......---..---.................K............K.....Y...G....H.......N........      0   0.00% Mu                                
...........VI..............---..---......-------..............Q....S.......G...........N.........      0   0.00% Lambda                            
.............A.............---..---G.---...................N.....K.....Y...G.....V...............      1   0.00% Beta                              
.._......--.......-._......---..---....................................Y..DG....H.._........A.H..      0   0.00% Alpha                             
.._......--.......-._......---..---....................................Y..DG....R..I........A.H..      0   0.00% Alpha                             
.._......--......._._......---..---....................................Y..DG....H..I........A.H..      0   0.00% Alpha                             
.._......--.......-._......---..---....................................Y..DG....H..I........A.H..      1   0.00% Alpha                             


The most common sequence patterns that are missed by the varint patterns
Missing: 7353 patterns, for a total of 162088 sequences
                                                                                             1111
               1111111111222222222222222222222222223333334444444444444455556666667777788999990112
1122222266777893444455559111111111112444444455555893477770014457788999900471577780016955556882176
8904567979056058234526780122223444452234678901238999613565870627846036815704557911464669049127864
LTTLPPATAHVGTDTDGVYYWEFRRNL---VR---DALALRSYLTPGDWVTGRSSSTDRKNGLSTEFFQGQNYTADHQQNPASTNDNTDQNLSTDVV Counts Percent NearbyLineage(s)
_I_---S_________D___R_L____---G_---________________HTFPFANSNKS_NKA_S__RYH__GY__KH___KY___HK______  20502   1.74% 
_I_---S_________D___R_L____---G_---________________HTFPFANSNKSRNKAS___RYH__GY__KH___KY___HK______  12333   1.05% 
_I_---S_________D__Q_______---E_---___________V____HTFPFANSNKS_NKAPS__RYH__GY__KH___KY___HK______  11223   0.95% 
_I_---S__--_____D__________---G_---________________D_FPFANSN__RNKAV___RYH__GY__KH___KY___HK______   9087   0.77% 
_I_---S_________D__Q_______---E_---___________V____HTFPFANSNKS_NKASS__RYH__GY__KH___KY___HK______   8792   0.75% 
_I_---S__--_____D__________---G_---________________D_FPFAN_NK_RNKAV___RYH__GY__KH___KY___HK______   6526   0.56% 
_I_---S_________D___R_L____---G_---________________HTFPFANSNKS_NKAS___RYH__GY__KH___KY___HK______   6012   0.51% 
_I_---S_________D__________---G_---________________D_FPFANSNK_MNKR____RYH__GY__KH___KY___HK______   4230   0.36% 
_I_---S_________D___R_L____---G_---________________HTFPFANSNKS_NKAPS__RYH__GY__KH___KY___HK______   3887   0.33% 
_I_---S_________D___R_L____---G_---________________HTFPFANSNKSRNKAI___RYH__GY__KH___KY___HK______   3597   0.31% 
_I_---S_________D__Q_______---E_---____________G___HTFPFANSNKS_NKASS__RYH__GY__KH___KY___HK______   2778   0.24% 
_I_---S__--_____D__________---G_---________________DTFPFANSN__RNKAV___RYH__GY__KH___KY___HK______   2775   0.24% 
_I_---S_________D___R_L____---G_---________________H_FPFANSNKS_NKA____RYH__GY__KH___KY___HK______   2607   0.22% 
_I_---S__--_____D__________---G_---________________D_FPFANSNK_RNKAV___RYH__G___KH___KY___HK______   1963   0.17% 
_I_---S__--________________---G_---________________D_FPFANSN__RNKAV___RYH__GY__KH___KY___HK______   1929   0.16% 
_I_---S__--_____D__________---G_---________________DTFPFAN_NK_RNKAV___RYH__GY__KH___KY___HK______   1875   0.16% 
_I_---S_________D__Q_______---E_---________________HTFPFANSNKS_NKASS__RYH__GY__KH___KY___HK______   1652   0.14% 
_I_---S_________D___R_L____---G_---________________HTFPFANSNKS_NKA____RYH__GY__KH___KY___HK______   1526   0.13% 
___---S__--_____D__________---G_---________________D_FPFANSNK_RNKAV___RYH__GY__KH___KY___HK______   1486   0.13% 
_I_---S__--_____D__________---G_---________________D_FPFAN_____NKAV___RYH__GY__KH___KY___HK______   1169   0.10% 
_________--_____D__________---G_---________________D_FPFANSNK_RNKAV___RYH__GY__KH___KY___HK______   1158   0.10% 
_I_---S__--_____D__________---G_---________________D_FPFANS_K_RNKAV___RYH__GY__KH___KY___HK______   1128   0.10% 
_I_---S__--_____D__________---G_---________________D_FPFANSNK_RNKAV___RYH__GY__K____KY___HK______   1087   0.09% 
_I_---S__--_____D__________---G_---________________DTFPFANS_K_RNKAV___RYH__GY__KH___KY___HK______   1055   0.09% 
_L_---S__--_____D__________---G_---________________D_FPFANSNK_RNKAV___RYH__GY__KH___KY___HK______    899   0.08% 
_I_---S__--________________---G_---________________DTFPFANSN__RNKAV___RYH__GY__KH___KY___HK______    882   0.08% 
_I_---S__--_____D_-________---G_---________________D_FPFANSNK_RNKAA___RYH__GY__KH___KY___HK______    869   0.07% 
_I_---S__--_____D__________---G_---________________D_FPFANSNK_RNKAV___RYH__GY__KH___K____HK______    860   0.07% 
_I_---S__--_____D__________---G_---________________D_FPFANSNK_RNKVV___RYH__GY__KH___KY___HK______    668   0.06% 
___---S__--_____D__________---G_---________________DTFPFANSNK_RNKAV___RYH__GY__KH___KY___HK______    628   0.05% 
_I_---S_________D___R_L____---G_---________________H_FPFANSNKSRNKA____RYH__GY__KH___KY___HK______    625   0.05% 
_I_---S__--_____D__________---E_---________________D_FPFANSNK_RNKAV___RYH__GY__KH___KY___HK______    565   0.05% 
_I_---S_________D___R_L____---G_---________________H_FPFANSNKS_NKA_S__RYH__GY__KH___KY___HK______    517   0.04% 
_I_---S__--_____D__________---G_---________________D_FPFANSNK_RNKAI___RYH__GY__KH___KY___HK______    500   0.04% 
_I_---S_________D__________---G_---________________D_FPFANSNKSMNKRS___RYH__GY__KH___KY___HK______    499   0.04% 
_I_---S_________D__Q_______---E_---___________V____HTFPFANS_KS_NKASS__RYH__GY__KH___KY___HK______    476   0.04% 
_I_---S__--_____D__________---G_---________________DTFPFAN_____NKAV___RYH__GY__KH___KY___HK______    473   0.04% 
_I_---S_________D___R_L__G-----_---________________HTFPFANSNKS_NKA_S__RYH__GY__KH___KY___HK______    458   0.04% 
_I_---S__--_____D__________---G_---________________DTFPFANSNK_RNKAV___RYH__GY__K____KY___HK______    457   0.04% 
_L_---S__--_____D__________---G_---________________DTFPFANSNK_RNKAV___RYH__GY__KH___KY___HK______    433   0.04% 
_I_---S__--_____D__________---G_---________________D_FPFA______NKAV___RYH__GY__KH___KY___HK______    430   0.04% 
_I_---S__--_____D_-________---G_---________________D_FPFAN_NK_RNKAV___RYH__GY__KH___KY___HK______    428   0.04% 
_I_---S_________D__________---G_---________________D_FPFAN_NK_RNKAV___RYH__GY__KH___KY___HK______    428   0.04% 
_I__S___________D_-__G--__S---__---HV_--_____________FPFANSNKSMNKAP___RYH__GY__KH___KY___HK______    416   0.04% 
_I_---S__--_____D__________---G_---________________DTFPFANSNK_RNRAV___RYH__GY__KH___KY___HK______    390   0.03% 
_I_---S_________D___R_L____---G_---________________HTFPFAN_NKS_NKA_S__RYH__GY__KH___KY___HK______    378   0.03% 
_I_---S__--_____D__________---G_---________________D_FPFANSNK_RNKAV___RYH__GY_______KY___HK______    362   0.03% 
_________--_____D__________---G_---________________DTFPFANSNK_RNKAV___RYH__GY__KH___KY___HK______    360   0.03% 
_I_---S__--_____D__________---G_---________________D_FPFANSNK_RNKAV___RY___GY__KH___KY___HK______    349   0.03% 
_I_---S__--_____D__________---G_---________________D__PFANSNK_RNKAV___RYH__GY__KH___KY___HK______    331   0.03% 

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last modified: Sun Jan 22 23:40 2023



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