diff --git a/lineage_notes.txt b/lineage_notes.txt index 2104721d..378bce7a 100644 --- a/lineage_notes.txt +++ b/lineage_notes.txt @@ -885,8 +885,9 @@ CH.1.1.15 Alias of B.1.1.529.2.75.3.4.1.1.1.1.15, found mainly in Lithuania, Ger CH.1.1.16 Alias of B.1.1.529.2.75.3.4.1.1.1.1.16, S:613H, ORF3a:S26L, on C193T branch, Germany/Sweden, from #1753 CH.1.1.17 Alias of B.1.1.529.2.75.3.4.1.1.1.1.17, M:S212G, on C21811T branch, from #1753 FK.1 Alias of B.1.1.529.2.75.3.4.1.1.1.1.17.1, found mainly in New Zealand and Australia, from pango-designation issue #1718 -FK.1.1 Alias of B.1.1.529.2.75.3.4.1.1.1.1.17.1.1, found mainly in New Zealand and Australia, from pango-designation issue #1881 +FK.1.1 Alias of B.1.1.529.2.75.3.4.1.1.1.1.17.1.1, ORF1a:A1060T, on C27804T>ORF1b:L2580I>N:G34E branch, New Zealand, from #1881 FK.1.2 Alias of B.1.1.529.2.75.3.4.1.1.1.1.17.1.2, ORF1a:L384F, ORF1a:R550H +FK.1.3 Alias of B.1.1.529.2.75.3.4.1.1.1.1.17.1.3, ORF1b:M1839I, on C27804T>ORF1b:L2580I>N:G34E branch, Australia CH.1.1.18 Alias of B.1.1.529.2.75.3.4.1.1.1.1.18, S:K187T, related to #1747 CH.1.1.19 Alias of B.1.1.529.2.75.3.4.1.1.1.1.19, C2773T, Europe FJ.1 Alias of B.1.1.529.2.75.3.4.1.1.1.1.19.1, ORF1a:A1204V, England diff --git a/lineages.csv b/lineages.csv index 7f9ea2be..9b4ec205 100644 --- a/lineages.csv +++ b/lineages.csv @@ -2235027,11 +2235027,6 @@ Australia/NSW-ICPMR-43508/2023,FK.1.1 Australia/NSW-ICPMR-43630/2023,FK.1.1 Australia/NSW-ICPMR-43613/2023,FK.1.1 Scotland/QEUH-326FC8F1/2023,FK.1 -Australia/QLD0x012F18/2023,FK.1 -Australia/QLD0x012EFF/2023,FK.1 -Australia/QLD0x012F75/2023,FK.1 -Australia/QLD0x012F63/2023,FK.1 -Australia/QLD0x012F20/2023,FK.1 Denmark/DCGC-642759/2023,FK.1 Denmark/DCGC-642788/2023,FK.1 Wales/PHWC-PKMAPW/2023,DV.5 @@ -2253640,7 +2253635,6 @@ Scotland/SCOT-25503/2023,CH.1.1 Iceland/L-3660/2023,CH.1.1 England/LSPA-32695C1C/2023,CH.1.1 Germany/NW-RKI-I-1112689/2023,CH.1.1 -Australia/QLD0x012F1A/2023,FK.1 England/BRBR-326C27AC/2023,CH.1.1 England/QEUH-326B3780/2023,CH.1.1 Canada/ON-PHL-23-07211/2023,CH.1.1 @@ -2253687,7 +2253681,6 @@ Japan/TKYkbm76349/2022,CH.1.1 England/PHEP-YYG8F6K/2023,CH.1.1 Japan/TKYkbm68159/2022,CH.1.1 Japan/TKYhug16344/2023,CH.1.1 -Australia/QLD0x012F1C/2023,FK.1 England/LSPA-326653D4/2022,CH.1.1 Denmark/DCGC-637213/2023,CH.1.1 Japan/TKYkbm76031/2022,CH.1.1 @@ -2253729,7 +2253722,6 @@ Sweden/01_SE100_22CS509580/2022,CH.1.1 England/PHEC-YY8Z34H/2022,CH.1.1 England/LSPA-3261ECDF/2022,CH.1.1 Ireland/CW-Enfer-020123002_D2/2023,CH.1.1 -Australia/QLD0x012F4E/2023,FK.1 France/HDF-IPP-04428/2023,CH.1.1 England/BRBR-326F2460/2023,CH.1.1.23 Australia/WA11011/2023,CH.1.1 @@ -2255111,7 +2255103,6 @@ France/ARA-HCL723000193501/2023,CH.1.1 Sweden/SUS0020748/2023,CH.1.1 England/QEUH-326E8C56/2023,CH.1.1 England/LSPA-3266FF9A/2022,CH.1.1 -Australia/QLD0x012F4A/2023,FK.1 Canada/ON-PHL-10689/2023,CH.1.1 England/BRBR-326E796F/2023,CH.1.1 England/LSPA-3269B108/2023,CH.1.1 @@ -2255814,7 +2255805,6 @@ Iceland/L-3733/2023,CH.1.1 USA/WV-CDC-LC0996120/2023,CH.1.1 Japan/TKYkbm74984/2022,CH.1.1 England/PHEC-YY8HX6W/2023,CH.1.1 -Australia/QLD0x012FA0/2023,FK.1 Denmark/DCGC-628414/2022,CH.1.1 Japan/TKYkbm65186/2022,CH.1.1 Australia/NSW-ICPMR-37507/2022,CH.1.1 @@ -2256687,7 +2256677,6 @@ Japan/PG-423548/2022,CH.1.1 France/PDL-IPP02351/2023,CH.1.1 USA/DC-CDC-LC0990366/2023,CH.1.1 England/QEUH-326531FD/2022,CH.1.1 -Australia/QLD0x012F1F/2023,FK.1 England/PHEC-YYERHKY/2023,CH.1.1 Germany/BW-RKI-I-1111669/2023,CH.1.1 England/PHEC-YYENUB9/2023,CH.1.1 @@ -2257299,7 +2257288,6 @@ Wales/PHWC-PKEJ9R/2022,CH.1.1 Austria/AGES-1108559/2023,CH.1.1 Netherlands/GR-UMCG-MMB_7391/2023,CH.1.1 England/QEUH-3266EF31/2022,CH.1.1 -Australia/QLD0x012F94/2023,FK.1 France/OCC-HCL723000244601/2023,CH.1.1 England/LSPA-326740AE/2022,CH.1.1 England/LSPA-32659072/2022,CH.1.1 @@ -2257915,7 +2257903,6 @@ USA/FL-CDC-QDX46136972/2023,CH.1.1 Belgium/Jessa_11-2305-005178/2023,CH.1.1 England/PHEP-YYGMAKA/2023,CH.1.1 India/MH-KasturbaMCGM-ICMR-INSACOG-WG5364/2022,CH.1.1 -Australia/QLD0x012F19/2023,FK.1 Peru/LAL-INS-36493/2022,CH.1.1 England/QEUH-326E56F1/2023,CH.1.1 Denmark/DCGC-624790/2022,CH.1.1 @@ -2355881,10 +2355868,6 @@ HongKong/VK23008984/2023,BN.1.3.10 Fujian/FCDC-202303S014/2023,BN.1.3.10 HongKong/VB23015936/2023,BN.1.3.10 Fujian/FCDC-202303S051/2023,BN.1.3.10 -Australia/QLD0x012FE8/2023,FK.1 -Australia/QLD0x013024/2023,FK.1 -Australia/QLD0x012FAC/2023,FK.1 -Australia/QLD0x012FAA/2023,FK.1 Australia/VIC81748/2023,FK.1 USA/WA-CDC-UW23031121990/2023,FK.1.1 Australia/WA12215/2023,FK.1.1 @@ -2355892,41 +2355875,23 @@ USA/WA-CDC-UW23032076106/2023,FK.1.1 Denmark/DCGC-644565/2023,FK.1.1 England/QEUH-327043D6/2023,FK.1.1 Australia/QLD0x01301A/2023,FK.1.1 -Australia/QLD0x012FE1/2023,FK.1 France/HDF-IPP06319/2023,FK.1.1 Australia/WA12169/2023,FK.1.1 USA/WA-CDC-UW23031410999/2023,FK.1.1 Australia/NSW-ICPMR-43866/2023,FK.1 Australia/WA12123/2023,FK.1 -Australia/QLD0x012FCB/2023,FK.1 -Australia/QLD0x012FAE/2023,FK.1 -Australia/QLD0x012FE7/2023,FK.1 Australia/VIC81710/2023,FK.1 -Australia/QLD0x012FEB/2023,FK.1 -Australia/QLD0x012FEF/2023,FK.1 Switzerland/BL-UHB-USB-5442c12c/2023,FK.1 -Australia/QLD0x01303C/2023,FK.1 Australia/QLD0x013034/2023,FK.1 -Australia/QLD0x012FCD/2023,FK.1 France/HDF-IPP06320/2023,FK.1.1 -Australia/QLD0x012FEC/2023,FK.1 -Australia/QLD0x012FF5/2023,FK.1 Australia/NSW-ICPMR-43870/2023,FK.1 -Australia/QLD0x012FE9/2023,FK.1 -Australia/QLD0x01301B/2023,FK.1 USA/WA-CDC-UW23031414260/2023,FK.1.1 Australia/NSW-ICPMR-43680/2023,FK.1 -Australia/QLD0x01301D/2023,FK.1 Denmark/DCGC-644285/2023,FK.1.1 -Australia/QLD0x012FAD/2023,FK.1 Australia/WA12174/2023,FK.1.1 -Australia/QLD0x012FE3/2023,FK.1 Australia/NSW-ICPMR-43825/2023,FK.1 -Australia/QLD0x012FCA/2023,FK.1 -Australia/QLD0x01305B/2023,FK.1 Australia/VIC81781/2023,FK.1 USA/NJ-PHEL-V008523/2023,FK.1 -Australia/QLD0x013026/2023,FK.1 Australia/NSW-ICPMR-43867/2023,FK.1 Spain/VC-FISABIO-116171/2023,BQ.1.1.73 Spain/VC-CVA_GRAL-116651/2023,BQ.1.1.73 @@ -2408565,3 +2408530,107 @@ Sweden/23-081282/2023,GG.1 Sweden/23-038601/2023,GG.1 Sweden/23-038672/2023,GG.1 Sweden/23-081239/2023,GG.1 +Australia/QLD0x012F18/2023,FK.1.3 +Australia/QLD0x012F1F/2023,FK.1.3 +Australia/QLD0x012EFF/2023,FK.1.3 +Australia/QLD0x012F1A/2023,FK.1.3 +Australia/QLD0x012F75/2023,FK.1.3 +Australia/QLD0x012F4A/2023,FK.1.3 +Australia/QLD0x012F19/2023,FK.1.3 +Australia/VIC83267/2023,FK.1.3 +Australia/QLD0x012F1C/2023,FK.1.3 +Japan/IC-16580/2023,FK.1.3 +Australia/QLD0x012FAD/2023,FK.1.3 +Australia/QLD0x012F4E/2023,FK.1.3 +Australia/NSW-ICPMR-46121/2023,FK.1.3 +Australia/QLD0x01321F/2023,FK.1.3 +Australia/QLD0x01301B/2023,FK.1.3 +Australia/QLD0x012F63/2023,FK.1.3 +Australia/VIC83796/2023,FK.1.3 +USA/CA-CDPH-FS47314776/2023,FK.1.3 +USA/CA-CDC-QDX48956588/2023,FK.1.3 +Chile/RM-27463/2023,FK.1.3 +Australia/SA537787/2023,FK.1.3 +Australia/VIC83556/2023,FK.1.3 +Australia/QLD0x012FEF/2023,FK.1.3 +Australia/VIC82578/2023,FK.1.3 +Japan/PG-469105/2023,FK.1.3 +Australia/NSW-ICPMR-45217/2023,FK.1.3 +Australia/QLD0x0131E7/2023,FK.1.3 +Japan/TKYnat13566/2023,FK.1.3 +Australia/VIC83396/2023,FK.1.3 +Australia/QLD0x0132CF/2023,FK.1.3 +Australia/QLD0x013272/2023,FK.1.3 +Australia/QLD0x013227/2023,FK.1.3 +Japan/TKYnat13780/2023,FK.1.3 +Australia/QLD0x0130BA/2023,FK.1.3 +Australia/QLD0x0132A7/2023,FK.1.3 +Australia/QLD0x0131D5/2023,FK.1.3 +Australia/QLD0x0131D3/2023,FK.1.3 +Australia/QLD0x013203/2023,FK.1.3 +Australia/NSW-ICPMR-45546/2023,FK.1.3 +Australia/QLD0x01314D/2023,FK.1.3 +Australia/NSW-ICPMR-44774/2023,FK.1.3 +Australia/NSW-ICPMR-44657/2023,FK.1.3 +Australia/QLD0x0130E6/2023,FK.1.3 +Australia/TAS005560/2023,FK.1.3 +Japan/TKYnat13533/2023,FK.1.3 +Japan/TKYnat13574/2023,FK.1.3 +Japan/TKYnat13888/2023,FK.1.3 +Australia/VIC83232/2023,FK.1.3 +Australia/VIC82728/2023,FK.1.3 +Australia/SA538717/2023,FK.1.3 +Australia/SA537886/2023,FK.1.3 +USA/MN-CDC-QDX49773650/2023,FK.1.3 +USA/WA-CDC-UW23042707423/2023,FK.1.3 +USA/WA-CDC-UW23042214045/2023,FK.1.3 +USA/WA-UW-23041179763/2023,FK.1.3 +Australia/NSW-ICPMR-44940/2023,FK.1.3 +Australia/NSW-ICPMR-44941/2023,FK.1.3 +Australia/SA538712/2023,FK.1.3 +Australia/NSW-ICPMR-44580/2023,FK.1.3 +Australia/NSW-ICPMR-46067/2023,FK.1.3 +Australia/NSW-ICPMR-45535/2023,FK.1.3 +Australia/QLD0x0130B2/2023,FK.1.3 +Australia/QLD0x0131B9/2023,FK.1.3 +Australia/QLD0x0131B5/2023,FK.1.3 +Australia/QLD0x013217/2023,FK.1.3 +Australia/QLD0x012F20/2023,FK.1.3 +Australia/QLD0x01305B/2023,FK.1.3 +Australia/QLD0x013024/2023,FK.1.3 +Australia/QLD0x012FCD/2023,FK.1.3 +Australia/QLD0x012FCB/2023,FK.1.3 +Australia/QLD0x012FEC/2023,FK.1.3 +Australia/QLD0x012FAA/2023,FK.1.3 +Australia/QLD0x012FF5/2023,FK.1.3 +Australia/QLD0x012FE7/2023,FK.1.3 +Australia/QLD0x012FE9/2023,FK.1.3 +Australia/QLD0x012FE8/2023,FK.1.3 +Australia/QLD0x012FAE/2023,FK.1.3 +Australia/QLD0x012FAC/2023,FK.1.3 +Australia/QLD0x012FA0/2023,FK.1.3 +Australia/QLD0x012FEB/2023,FK.1.3 +Australia/QLD0x012F94/2023,FK.1.3 +Australia/QLD0x012FE3/2023,FK.1.3 +Australia/QLD0x013149/2023,FK.1.3 +Australia/QLD0x01303C/2023,FK.1.3 +USA/WA-GBW-H10-012-3156/2023,FK.1.3 +USA/WA-GBW-H20-317-9867/2023,FK.1.3 +Australia/QLD0x013233/2023,FK.1.3 +Australia/QLD0x0132B5/2023,FK.1.3 +Australia/QLD0x01301D/2023,FK.1.3 +Australia/QLD0x01309A/2023,FK.1.3 +Australia/QLD0x012FCA/2023,FK.1.3 +Australia/QLD0x0130A9/2023,FK.1.3 +Australia/QLD0x0131E6/2023,FK.1.3 +Australia/QLD0x012FE1/2023,FK.1.3 +Australia/QLD0x013168/2023,FK.1.3 +Australia/QLD0x013026/2023,FK.1.3 +Australia/WA13211/2023,FK.1.3 +Australia/WA13127/2023,FK.1.3 +Australia/NSW-ICPMR-46293/2023,FK.1.3 +Australia/NSW-ICPMR-46294/2023,FK.1.3 +Australia/WA13318/2023,FK.1.3 +Australia/WA13298/2023,FK.1.3 +Australia/WA13317/2023,FK.1.3 +Australia/WA13322/2023,FK.1.3