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Embers

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

Run Geographically Restricted Embers
Last update: May 28, 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......      0   0.00% Omicron_BA.2+212SGR               
.I.........................---G.---................D.FPFANSNK.RNKAV._.RYH..GY..KH...KY...HK...... 383817  56.38% Omicron_BA.4andBA.5               
.I..............D..........---G.---................D.FPFANSNK.QNKA..R.RYH..GY..KH.L.KY...HK......     10   0.00% Omicron_BA.2+L452Q+S704L_BA.2.12.1
.I..__..........D..........---G.---................D.FPFANSNK._NKA..R.RYH..GY..KH...KY...HK......      0   0.00% Omicron_BA.2+P25_,P26_            
.I..--..........D..........---G.---................D.FPFANSN..MNKA..R.RYH..GY..KH...KY...HK......      4   0.00% Omicron_BA.2+L452M                
.I..............D..........---G.---................D.FPFANSTK..NKA..R.RYH..GY..KH...KY...HK......      5   0.00% Omicron_BA.2+K417T                
.I..--..........D..........---G.---................D.FPFANSN.._NKA..R.RYH..GY..KH...KY...HK......     55   0.01% Omicron_BA.2                      
........V--...I............---..---................DKLPF.........A..R.RYH..GY..KH...KY...HK......     27   0.00% Omicron_BA.1.1                    
........V--...I............---..---................D_.PF___..._..A..R.RYHK.GY..KH...KYK..HKF.....      0   0.00% Omicron_BA.1                      
........V--...I............---..EPE................D_.PF......_..A..R.RYH..GY..KH...KY...HK......     12   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........      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........_...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......._      0   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......._      8   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.      1   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...............      0   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..      0   0.00% Alpha                             


The most common sequence patterns that are missed by the varint patterns
Missing: 6530 patterns, for a total of 296814 sequences
                                                                                             1111
               1111111111222222222222222222222222223333334444444444444455556666667777788999990112
1122222266777893444455559111111111112444444455555893477770014457788999900471577780016955556882176
8904567979056058234526780122223444452234678901238999613565870627846036815704557911464669049127864
LTTLPPATAHVGTDTDGVYYWEFRRNL---VR---DALALRSYLTPGDWVTGRSSSTDRKNGLSTEFFQGQNYTADHQQNPASTNDNTDQNLSTDVV Counts Percent NearbyLineage(s)
_I_---S_________D_-________---E_---___________V____HTFPFANSNKS_NKAPS__RYH__GY__KH___KY___HK______ 142339  20.91% 
_I_---S_________D___R_L____---G_---________________HTFPFANSNKSRNKAS___RYH__GY__KH___KY___HK______  28338   4.16% 
_I_---S_________D___R_L____---G_---________________HTFPFANSNKS_NKA_S__RYH__GY__KH___KY___HK______  27735   4.07% 
_I_---S_________D___R_L____---G_---________________HTFPFANSNKS_NKAPS__RYH__GY__KH___KY___HK______   8374   1.23% 
_I_---S_________D_-________---E_---___________V____HTFPFANSNKS_NKASS__RYH__GY__KH___KY___HK______   8230   1.21% 
_I_---S_________D_-________---E_---____________G___HTFPFANSNKS_NKASS__RYH__GY__KH___KY___HK______   5596   0.82% 
_I_---S_________D_-________---E_---___________V____HTFPFANSNKS_NRAPS__RYH__GY__KH___KY___HK______   4758   0.70% 
_I_---S_________D___R_L____---G_---________________HTFPFANSNKSRNKAI___RYH__GY__KH___KY___HK______   3765   0.55% 
_I_---S_________D__________---G_---________________D_FPFANSNK_MNKR____RYH__GY__KH___KY___HK______   2131   0.31% 
_I_---S_________D_-________---E_---___________V____HTFPFANS_KS_NKAPS__RYH__GY__KH___KY___HK______   2093   0.31% 
_I_---S_________D_-________---E_---____________G___HTFPFANSNKS_NKAPS__RYH__GY__KH___KY___HK______   2005   0.29% 
_I_---S_________D_-________---E_---___________V____HTFPFANSNKS_NRAPS__RYHI_GY__KH___KY___HK______   1606   0.24% 
_I_---S__--_____D_-________---G_---________________D_FPFANSNK_RNKAA___RYH__GY__KH___KY___HK______   1222   0.18% 
_I_---S_________D_-________---E_---________________HTFPFANSNKS_NKASS__RYH__GY__KH___KY___HK______   1077   0.16% 
_I_---S__--_____D__________---G_---________________DTFPFANS_K_RNKAV___RYH__GY__KH___KY___HK______   1055   0.15% 
_I_---S_________D_-________---E_---___________V____HTFPFAN_NKS_NKAPS__RYH__GY__KH___KY___HK______   1051   0.15% 
_I_---S__--_____D__________---G_---________________DTFPFAN_NK_RNKAV___RYH__GY__KH___KY___HK______   1023   0.15% 
_I_---S__--_____D__________---G_---________________DTFPFANSN__RNKAV___RYH__GY__KH___KY___HK______    935   0.14% 
_I_---S_________D_-________---E_---________________HTFPFANSNKS_NKAPS__RYH__GY__KH___KY___HK______    919   0.13% 
_I_---S_________D_-________---E_---___________V____HTFPFAN_NKS__KAPS__RYH__GY__KH___KY___HK______    795   0.12% 
_I_---S_________D__________---G_---________________D_FPFANSNKSMNKRS___RYH__GY__KH___KY___HK______    733   0.11% 
_I_---S_________D___R_L____---G_---________________HTFPFANSNKS_NKAS___RYH__GY__KH___KY___HK______    705   0.10% 
_I_---S_________D___R_L____---G_---G_______________HTFPFANSNKSRNKAS___RYH__GY__KH___KY___HK______    656   0.10% 
_I_---S_________D___R_L____---G_---________________H_FPFANSNKS_NKA_S__RYH__GY__KH___KY___HK______    593   0.09% 
_I_---S_________D_-________---E_---___________V____HTFPFANS_KS_NKASS__RYH__GY__KH___KY___HK______    586   0.09% 
_I_---S_________D_-________---E_---H__________V____HTFPFANSNKS_NKAPS__RYH__GY__KH___KY___HK______    573   0.08% 
_I_---S__--_____D_-________---G_---________________DTFPFANS_K_RNKAV___RYH__GY__KH___KY___HK______    572   0.08% 
_I_---S__--_____D__________---G_---________________DTFPFANSNK_RNRAV___RYH__GY__KH___KY___HK______    560   0.08% 
_I_---S__--_____D__________---G_---________________D_FPFAN_NK_RNKAV___RYH__GY__KH___KY___HK______    540   0.08% 
_I_---S_________D__________---E_---___________V____HTFPFANSNKS_NKAPS__RYH__GY__KH___KY___HK______    537   0.08% 
_I_---S_________D___R_L__G-----_---________________HTFPFANSNKS_NKA_S__RYH__GY__KH___KY___HK______    525   0.08% 
_I__S___________D_-__G--__S---__---HV_--_____________FPFANSNKSMNKAP___RYH__GY__KH___KY___HK______    521   0.08% 
_I__S___________D_-__G--__S---__---HV_--____________SFPFANSNKSRNKAP___RYH__GY__KH___KY___HK______    520   0.08% 
_I_---S__--_____D__________---G_---________________D_FPFANS_K_RNKAV___RYH__GY__KH___KY___HK______    513   0.08% 
_I_---S__--_____D_-________---G_---________________DTFPFAN_NK_RNKAV___RYH__GY__KH___KY___HK______    505   0.07% 
_I_---S__--________________---G_---________________DTFPFANSN__RNKAV___RYH__GY__KH___KY___HK______    489   0.07% 
_I_---S_________D_-________---E_---___________V____HTFPFANSNKS_NKAPS__RYH__GY__KHV__KY___HK______    459   0.07% 
_I_---S_________D_-________---E_---___________V____HTFPFANSNKS_NKAPS__RYH__GYH_KH___KY___HK______    441   0.06% 
_I_---S_________D__HR_L____---G_---________________HTFPFANSNKS_NKA_S__RYH__GY__KH___KY___HK______    428   0.06% 
_I_---S_________D___R_L____---G_---________________H_FPFANSNKSRNKA____RYH__GY__KH___KY___HK______    395   0.06% 
_I_---S_________D___R_L____---G_---________________HTFPFANSNKS_NKA____RYH__GY__KH___KY___HK______    376   0.06% 
_I_---S_________D___R_L____---G_---________________HTFPFAN_NKS_NKA_S__RYH__GY__KH___KY___HK______    369   0.05% 
_I_---S__--_____D__________---G_---________________D_FPFANSN__RNKAV___RYH__GY__KH___KY___HK______    368   0.05% 
___---S__--_____D__________---G_---________________DTFPFANSNK_RNKAV___RYH__GY__KH___KY___HK______    365   0.05% 
_I_---S___________-________---E_---___________V____HTFPFANSNKS_NKAPS__RYH__GY__KH___KY___HK______    355   0.05% 
_L_---S__--_____D__________---G_---________________DTFPFANSNK_RNKAV___RYH__GY__KH___KY___HK______    351   0.05% 
_I_---S___________-________---E_---___________V____HTFPFANS_KS_NKAPS__RYH__GY__KH___KY___HK______    320   0.05% 
___---S_________D_-________---E_---___________V____HTFPFANSNKS_NKAPS__RYH__GY__KH___KY___HK______    317   0.05% 
_I_---S_________D_-________---EL---___________V____HTFPFANSNKS_NKAPS__RYH__GY__KH___KY___HK______    273   0.04% 
_I_---SI________D_-________---E_---___________V____HTFPFANSNKS_NKAPS__RYH__GY__KH___KY___HK______    271   0.04% 

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last modified: Wed May 24 14:07 2023



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