From 19d424643ee51b7e4eea27fc1c2ad21e15e3aaba Mon Sep 17 00:00:00 2001 From: Cornelius Roemer Date: Fri, 24 Mar 2023 19:26:18 +0100 Subject: [PATCH] Added lineage CM.8.1.4 (ORF1a:N2890D) with 86 designations --- lineage_notes.txt | 1 + lineages.csv | 119 +++++++++++++++++++++++++++++++++------------- 2 files changed, 86 insertions(+), 34 deletions(-) diff --git a/lineage_notes.txt b/lineage_notes.txt index 2401e168..8f40454f 100644 --- a/lineage_notes.txt +++ b/lineage_notes.txt @@ -697,6 +697,7 @@ CM.8.1 Alias of B.1.1.529.2.3.20.8.1, Australia/England, S:F486S CM.8.1.1 Alias of B.1.1.529.2.3.20.8.1.1, Singapore/Malaysia, S:K147N CM.8.1.2 Alias of B.1.1.529.2.3.20.8.1.2, Germany/USA, S:K147I CM.8.1.3 Alias of B.1.1.529.2.3.20.8.1.3, USA, S:Y1272H +CM.8.1.4 Alias of B.1.1.529.2.3.20.8.1.4, N2890D CM.9 Alias of B.1.1.529.2.3.20.9, USA/Canada/Israel, S:S256L CM.10 Alias of B.1.1.529.2.3.20.10, USA/South Korea/Singapore, S:K478T reversion, S:V445A CM.11 Alias of B.1.1.529.2.3.20.11, USA/South Korea, S:R346T, S:F486S, from #1509 diff --git a/lineages.csv b/lineages.csv index e1f2ddf0..b87881dc 100644 --- a/lineages.csv +++ b/lineages.csv @@ -2282712,10 +2282712,7 @@ Finland/THL-21416/2022,BQ.1.2 USA/WI-MHDL-120142/2022,BQ.1.2 Italy/VEN-ULSS3GEN-7002517570_VE/2023,BQ.1.2 Canada/AB-ABPHL-90770/2023,BQ.1.2 -USA/TX-PHH-SPID1004422570/2022,CM.8.1 -Germany/SN-RKI-I-1073888/2022,CM.8.1 USA/HI-H2318929/2022,CM.8.1 -Denmark/DCGC-637705/2023,CM.8.1 USA/CA-CDPH-FS47315651/2023,CM.8.1 Canada/ON-KHS-23-00927-v1/2023,CM.8.1 USA/UT-UPHL-230303438625/2023,CM.8.1 @@ -2282731,23 +2282728,19 @@ Japan/TKYkbm86425/2023,CM.8.1 Canada/ON-PHL-23-05892/2023,CM.8.1 USA/CA-HLX-STM-JSHWWMPDT/2022,CM.8.1 USA/UT-UPHL-221230239954/2022,CM.8.1 -Japan/PG-446588/2023,CM.8.1 Mexico/SLP_IBT_IMSS_10011/2022,CM.8.1 USA/CA-HLX-STM-AEU68X9MN/2022,CM.8.1 USA/UT-CDC-VSX-A079254/2023,CM.8.1 Canada/BC-BCCDC-585413/2023,CM.8.1 -Japan/PG-422060/2022,CM.8.1 Canada/ON-PHL-23-15879/2023,CM.8.1 USA/CA-CDC-LC1022174/2023,CM.8.1 Canada/QC-LSPQ-L00583959001/2023,CM.8.1 Mexico/VER-LANGEBIO_IMSS_14211/2023,CM.8.1 -Singapore/R4MR185/2023,CM.8.1 Philippines/PH-RITM-3184/2022,CM.8.1 Canada/BC-BCCDC-585393/2023,CM.8.1 USA/CA-ASC-210964556/2023,CM.8.1 USA/WA-CDC-UW23730/2022,CM.8.1 Canada/ON-PHL-23-05895/2023,CM.8.1 -Singapore/R16MR96/2023,CM.8.1 USA/CA-HLX-STM-TUQFCMKJW/2022,CM.8.1 USA/NY-URMC-2211B268-1/2022,CM.8.1 USA/CA-HLX-STM-Z3SVQ65JS/2022,CM.8.1 @@ -2282757,17 +2282750,14 @@ USA/CA-CDC-STM-QZ5C5NDHU/2022,CM.8.1 USA/UT-UPHL-230224282466/2023,CM.8.1 Germany/NI-RKI-I-1038472/2022,CM.8.1 USA/ID-IBL-867807/2022,CM.8.1 -USA/TX-CDC-QDX44334400/2022,CM.8.1 USA/WI-CDC-QDX44485545/2022,CM.8.1 USA/CA-SEARCH-218421/2022,CM.8.1 -Germany/BY-RKI-I-1072303/2022,CM.8.1 USA/CA-CDC-STM-9XS4GDCQ4/2022,CM.8.1 USA/CA-SLOPH-C1856/2022,CM.8.1 Japan/TKYkbm77786/2022,CM.8.1 Japan/IC-15861/2023,CM.8.1 Canada/ON-PHL-22-61463/2022,CM.8.1 USA/CA-CDC-LC0949531/2022,CM.8.1 -USA/IL-CDC-LC0982359/2022,CM.8.1 Japan/PG-422337/2022,CM.8.1 USA/CA-SEARCH-219356/2022,CM.8.1 Canada/QC-L00571994001/2023,CM.8.1 @@ -2282782,7 +2282772,6 @@ USA/CA-HLX-STM-4KN9XYT7D/2022,CM.8.1 Japan/TKYkbm65921/2022,CM.8.1 USA/CA-CDPH-FS48081889/2022,CM.8.1 Japan/PG-425244/2022,CM.8.1 -Canada/BC-BCCDC-566581/2022,CM.8.1 Canada/ON-PHL-23-07257/2023,CM.8.1 Canada/ON-PHL-11476/2023,CM.8.1 Australia/NSW-ICPMR-40396/2022,CM.8.1 @@ -2282793,7 +2282782,6 @@ USA/CA-CDC-LC0925563/2022,CM.8.1 USA/MI-CDC-STM-847BNUGUX/2022,CM.8.1 USA/TX-ASC-210995670/2023,CM.8.1 Canada/ON-PHL-22-60266/2022,CM.8.1 -Philippines/PH-RITM-3858/2023,CM.8.1 USA/UT-UPHL-221230223809/2022,CM.8.1 Canada/ON-PHL-14052/2023,CM.8.1 Canada/ON-PHL-14053/2023,CM.8.1 @@ -2282805,32 +2282793,26 @@ Japan/PG-437793/2023,CM.8.1 USA/CA-SEARCH-221336/2022,CM.8.1 USA/TX-HMH-MCoV-124245/2023,CM.8.1 USA/CA-CDPH-FS47038089/2023,CM.8.1 -Canada/BC-BCCDC-571237/2022,CM.8.1 Japan/PG-427993/2023,CM.8.1 Singapore/R3MR14/2023,CM.8.1 Canada/ON-PHL-23-07256/2023,CM.8.1 USA/OR-S22659/2023,CM.8.1 USA/CA-CDC-QDX43797197/2022,CM.8.1 USA/CA-CDPH-FS48079852/2022,CM.8.1 -Philippines/PH-RITM-3162/2022,CM.8.1 Philippines/PGCV_0047_4991/2022,CM.8.1 -France/NAQ-CHUP-2302081660/2023,CM.8.1 USA/TX-ASC-210995457/2023,CM.8.1 USA/CA-CDC-STM-22ZQ96FA9/2022,CM.8.1 Canada/ON-PHL-23-06118/2023,CM.8.1 USA/CA-CDC-LC0933220/2022,CM.8.1 England/LSPA-3262C7FB/2022,CM.8.1 -Japan/PG-410346/2022,CM.8.1 USA/CA-ASC-210962396/2022,CM.8.1 USA/UT-UPHL-230217323723/2023,CM.8.1 -USA/NV-CDC-QDX44021819/2022,CM.8.1 Canada/AB-ABPHL-89712/2022,CM.8.1 USA/IL-2212023261/2023,CM.8.1 Canada/AB-ABPHL-89666/2022,CM.8.1 USA/CA-CDC-STM-VBVQAT3AT/2022,CM.8.1 USA/CA-SCPHL-23WGS00310/2023,CM.8.1 Japan/PG-443515/2023,CM.8.1 -USA/HI-H2319267/2023,CM.8.1 Philippines/PGCV_0047_5029/2022,CM.8.1 USA/CA-CDPH-7000020838/2022,CM.8.1 USA/CO-CDPHE-2103773671/2023,CM.8.1 @@ -2282841,7 +2282823,6 @@ USA/AZ-CDC-STM-SFDSSF8XR/2022,CM.8.1 USA/CA-SCPHL-22-02577/2022,CM.8.1 USA/CA-HLX-STM-JJESETZTQ/2022,CM.8.1 Singapore/R2MR15/2023,CM.8.1 -Japan/PG-449012/2023,CM.8.1 USA/CA-HLX-STM-JXMHEWQ9R/2023,CM.8.1 Japan/PG-443314/2023,CM.8.1 USA/ND-USAFSAM-S20775/2022,CM.8.1 @@ -2282879,13 +2282860,11 @@ Brunei/7723001311/2023,CM.8.1 Philippines/PH-RITM-3185/2022,CM.8.1 Philippines/PGCV_0047_5008/2022,CM.8.1 USA/WA-CDC-UW25298/2022,CM.8.1 -USA/HI-H2319200/2023,CM.8.1 USA/CA-GBW-H20-278-9967/2023,CM.8.1 Japan/TKYkbm77344/2022,CM.8.1 USA/WA-UW-22112965564/2022,CM.8.1 Japan/TKYkbm66539/2022,CM.8.1 USA/ND-USAFSAM-S20872/2022,CM.8.1 -Denmark/DCGC-637262/2023,CM.8.1 USA/WA-CDC-UW22122206557/2022,CM.8.1 USA/CA-CDC-STM-5N7PQJSSB/2022,CM.8.1 Japan/PG-439493/2023,CM.8.1 @@ -2282894,10 +2282873,8 @@ Japan/TKYmbc25308/2022,CM.8.1 Canada/QC-L00586112001/2023,CM.8.1 USA/CA-SFDPH-SANFR-11375/2022,CM.8.1 USA/IL-11162022051/2022,CM.8.1 -Denmark/DCGC-636725/2023,CM.8.1 Canada/BC-BCCDC-581391/2023,CM.8.1 Canada/BC-BCCDC-595013/2023,CM.8.1 -Canada/BC-BCCDC-553057/2022,CM.8.1 USA/AZ-CDC-LC0944563/2022,CM.8.1 Brunei/CMDLID-7123010764/2023,CM.8.1 USA/MP-CDC-2-6763279/2022,CM.8.1 @@ -2282920,7 +2282897,6 @@ Canada/AB-ABPHL-89745/2022,CM.8.1 Japan/PG-436080/2023,CM.8.1 USA/MA-CDCBI-CRSP_7VKLSMGC52TSB7FO/2023,CM.8.1 USA/WA-CDC-LC0984042/2023,CM.8.1 -Japan/TKYkbm80152/2022,CM.8.1 USA/CA-HLX-STM-XBHX8UGV7/2022,CM.8.1 Australia/VIC81578/2023,CM.8.1 USA/CA-CDPH-FS48083242/2022,CM.8.1 @@ -2282939,24 +2282915,19 @@ USA/CA-CDC-STM-UJB9N8SYF/2022,CM.8.1 Singapore/R11MR17/2023,CM.8.1 Australia/TAS005066/2023,CM.8.1 Canada/ON-PHL-23-03817/2023,CM.8.1 -Germany/SN-RKI-I-1084589/2022,CM.8.1 -Japan/PG-449033/2023,CM.8.1 Japan/TKYkbm78956/2022,CM.8.1 USA/MN-MDH-34172/2023,CM.8.1 USA/IN-CDC-LC1011049/2023,CM.8.1 USA/CA-HLX-STM-EPKHW5KW5/2023,CM.8.1 -Japan/PG-417408/2022,CM.8.1 USA/CA-CDC-LC0948131/2022,CM.8.1 USA/IL-CDC-QDX45864197/2023,CM.8.1 USA/UT-UPHL-230217292901/2023,CM.8.1 Canada/QC-L00580172001/2023,CM.8.1 Philippines/PH-RITM-3452/2022,CM.8.1 -Chile/CO-137807/2022,CM.8.1 England/LSPA-32625B41/2022,CM.8.1 Germany/HH-RKI-I-1064228/2022,CM.8.1 USA/CA-CDPH-FS25388312/2022,CM.8.1 Canada/ON-PHL-23-05902/2023,CM.8.1 -Singapore/R11MR68/2023,CM.8.1 USA/CA-CDPH-FS25390795/2022,CM.8.1 Canada/ON-PHL-23-05359/2023,CM.8.1 Canada/BC-BCCDC-577541/2023,CM.8.1 @@ -2282967,7 +2282938,6 @@ Japan/PG-439498/2023,CM.8.1 Canada/ON-PHL-23-13658/2023,CM.8.1 Japan/PG-434499/2023,CM.8.1 Japan/TKYkbm87502/2023,CM.8.1 -Japan/TKYkbm70658/2022,CM.8.1 England/LSPA-32627E19/2022,CM.8.1 USA/CA-CDPH-FS47037865/2022,CM.8.1 Japan/TKYkbm65678/2022,CM.8.1 @@ -2282980,18 +2282950,14 @@ Canada/ON-PHL-23-05903/2023,CM.8.1 Japan/PG-428291/2022,CM.8.1 Japan/PG-392689/2022,CM.8.1 Philippines/PGCV_0045_4938/2022,CM.8.1 -Germany/BY-RKI-I-1072190/2022,CM.8.1 USA/CA-SEARCH-130599/2022,CM.8.1 Philippines/PH-VUI-147572/2023,CM.8.1 Canada/ON-PHL-23-05893/2023,CM.8.1 Singapore/16070/2022,CM.8.1 England/PHEC-YY8TGIF/2022,CM.8.1 -Japan/TKYmbc30514/2022,CM.8.1 USA/CA-CDPH-FS48082110/2022,CM.8.1 -USA/NY-SUNYQB-X4102/2022,CM.8.1 USA/CA-CDC-LC0961583/2022,CM.8.1 Canada/QC-L00573675001/2023,CM.8.1 -Japan/TKYkbm81292/2022,CM.8.1 USA/FL-ASC-210991636/2022,BA.2.75.2 USA/TX-HMH-M-111935/2022,BA.2.75.2 Scotland/EDB72457/2022,BA.2.75.2 @@ -2359056,3 +2359022,88 @@ USA/CA-CDC-STM-VVB9W2CE4/2022,CM.8.1.3 USA/CA-CDC-STM-286QB2DUB/2022,CM.8.1.3 USA/CA-CDC-STM-CT6VNFK4Y/2022,CM.8.1.3 USA/CA-CDC-STM-7ZF7A5GVN/2022,CM.8.1.3 +USA/NV-CDC-QDX44021819/2022,CM.8.1.4 +USA/CA-SC-275434/2022,CM.8.1.4 +Philippines/PH-VUI-144350/2022,CM.8.1.4 +England/BRBR-32674F92/2022,CM.8.1.4 +USA/TX-HMH-MCoV-120617/2022,CM.8.1.4 +Philippines/PH-RITM-3683/2022,CM.8.1.4 +USA/TX-CDC-LC0984161/2023,CM.8.1.4 +Germany/NW-RKI-I-1102850/2023,CM.8.1.4 +Philippines/PGCV_0047_5033/2022,CM.8.1.4 +USA/CA-CDPH-500085832/2022,CM.8.1.4 +USA/TX-CDC-QDX44334400/2022,CM.8.1.4 +Canada/BC-BCCDC-553057/2022,CM.8.1.4 +Philippines/PH-RITM-3162/2022,CM.8.1.4 +USA/HI-H2319200/2023,CM.8.1.4 +USA/HI-H2319267/2023,CM.8.1.4 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