From 7b26841b947db0e86595de27d2fe27d24a22f262 Mon Sep 17 00:00:00 2001 From: InfrPopGen Date: Thu, 23 Mar 2023 19:20:43 +0000 Subject: [PATCH] Added new lineage CP.8.1 from #1627 with 0 new sequence designations, and 17 updated from CP.8, and 15 from BA.5.2.6 --- lineage_notes.txt | 1 + lineages.csv | 65 +++++++++++++++++++++++------------------------ 2 files changed, 33 insertions(+), 33 deletions(-) diff --git a/lineage_notes.txt b/lineage_notes.txt index 87f66d9e..d1059fcb 100644 --- a/lineage_notes.txt +++ b/lineage_notes.txt @@ -1165,6 +1165,7 @@ CP.5 Alias of B.1.1.529.5.2.6.5, South Africa, S:C1247F CP.6 Alias of B.1.1.529.5.2.6.6, S:V1264L CP.7 Alias of B.1.1.529.5.2.6.7 found mainly in Japan, from pango-designation issue #1473 CP.8 Alias of B.1.1.529.5.2.6.8 ORF1b:D1939G, C15240T, A15486G, C28651T, related to #1627 +CP.8.1 Alias of B.1.1.529.5.2.6.8.1 found mainly in the Australia and Japan, from pango-designation issue #1627 BA.5.2.7 Alias of B.1.1.529.5.2.7, global lineage, from pango-designation issue #924 CY.1 Alias of B.1.1.529.5.2.7.1, found mainly in Belgium, Netherlands and Luxembourg, from pango-designation issue #1247 CY.2 Alias of B.1.1.529.5.2.7.2 found in Japan, from pango-designation issue #1474 diff --git a/lineages.csv b/lineages.csv index 8260a407..b30277ba 100644 --- a/lineages.csv +++ b/lineages.csv @@ -2235075,24 +2235075,23 @@ Australia/QLD0x012111/2022,CP.8 Australia/QLD0x012E74/2023,CP.8 Australia/QLD0x0124A2/2022,CP.8 Australia/QLD0x0125BD/2022,CP.8 -Australia/WA8284/2022,CP.8 -Australia/WA8469/2022,CP.8 -Australia/WA9489/2022,CP.8 -Australia/WA9389/2022,CP.8 -Australia/WA8130/2022,CP.8 -Japan/PG-407322/2022,CP.8 -Japan/IC-15052/2022,CP.8 -Australia/QLD0x01272B/2022,CP.8 -Australia/QLD0x012630/2022,CP.8 -Australia/QLD0x0127B8/2022,CP.8 -Australia/QLD0x01274F/2022,CP.8 -Australia/WA9856/2022,CP.8 -Japan/TKYmbc27826/2022,CP.8 -Japan/PG-437613/2023,CP.8 -Japan/TKYhug16229/2023,CP.8 -Japan/PG-413262/2022,CP.8 -Japan/PG-428690/2023,CP.8 -Japan/PG-451107/2023,CP.8 +Australia/WA8284/2022,CP.8.1 +Australia/WA8469/2022,CP.8.1 +Australia/WA9389/2022,CP.8.1 +Australia/WA8130/2022,CP.8.1 +Japan/PG-407322/2022,CP.8.1 +Japan/IC-15052/2022,CP.8.1 +Australia/QLD0x01272B/2022,CP.8.1 +Australia/QLD0x012630/2022,CP.8.1 +Australia/QLD0x0127B8/2022,CP.8.1 +Australia/QLD0x01274F/2022,CP.8.1 +Australia/WA9856/2022,CP.8.1 +Japan/TKYmbc27826/2022,CP.8.1 +Japan/PG-437613/2023,CP.8.1 +Japan/TKYhug16229/2023,CP.8.1 +Japan/PG-413262/2022,CP.8.1 +Japan/PG-428690/2023,CP.8.1 +Japan/PG-451107/2023,CP.8.1 Indonesia/JK-NIHRD-22-37415/2022,CP.8 Australia/WA7014/2022,CP.8 Australia/WA8215/2022,CP.8 @@ -2345834,7 +2345833,7 @@ France/ARA-GENBIO-14292421892/2022,BA.5.2.6 Wales/QEUH-325E7FD7/2022,BA.5.2.6 Japan/TKYmbc10397/2022,BA.5.2.6 Germany/ST-MD12713/2022,BA.5.2.6 -Australia/WA10456/2022,BA.5.2.6 +Australia/WA10456/2022,CP.8.1 Japan/PG-362338/2022,BA.5.2.6 Japan/TKYmbc22282/2022,BA.5.2.6 Japan/PG-411815/2022,BA.5.2.6 @@ -2345851,7 +2345850,7 @@ Japan/PG-446817/2023,BA.5.2.6 Japan/PG-426711/2022,BA.5.2.6 Japan/PG-446251/2023,BA.5.2.6 Canada/ON-PHL-22-58047/2022,BA.5.2.6 -Australia/WA8584/2022,BA.5.2.6 +Australia/WA8584/2022,CP.8.1 Japan/PG-425236/2022,BA.5.2.6 USA/ND-NDDH-22522/2023,BA.5.2.6 Japan/TKYkbm78169/2022,BA.5.2.6 @@ -2346189,7 +2346188,7 @@ Germany/NW-RKI-I-1025334/2022,BA.5.2.6 England/LSPA-325A121C/2022,BA.5.2.6 Mauritius/ILRI_M04848/2022,BA.5.2.6 Australia/WA9182/2022,BA.5.2.6 -Japan/PG-449700/2023,BA.5.2.6 +Japan/PG-449700/2023,CP.8.1 France/ARA-HCL722004226601/2022,BA.5.2.6 Germany/BW-RKI-I-1066498/2022,BA.5.2.6 Japan/PG-445759/2023,BA.5.2.6 @@ -2346237,7 +2346236,7 @@ Japan/TKYkbm77361/2022,BA.5.2.6 USA/NY-PRL-221128_03M14/2022,BA.5.2.6 England/PHEP-YYF56S3/2022,BA.5.2.6 Japan/PG-399134/2022,BA.5.2.6 -Indonesia/JI-ITD-58291NT/2022,BA.5.2.6 +Indonesia/JI-ITD-58291NT/2022,CP.8.1 USA/CA-SEARCH-129864/2022,BA.5.2.6 USA/NY-PRL-220914_00I12/2022,BA.5.2.6 USA/NV-CDC-QDX44739398/2022,BA.5.2.6 @@ -2346501,7 +2346500,7 @@ Austria/AGES-1156862/2022,BA.5.2.6 USA/MI-CDC-STM-N3JPBUFKE/2022,BA.5.2.6 USA/MA-CDCBI-CRSP_F7SHG2X4BXXF23Z6/2022,BA.5.2.6 Canada/ON-PHL-23-00340/2022,BA.5.2.6 -Cambodia/268620/2022,BA.5.2.6 +Cambodia/268620/2022,CP.8.1 Germany/NI-RKI-I-1055571/2022,BA.5.2.6 USA/NJ-CDC-QDX41124312/2022,BA.5.2.6 Luxembourg/LNS5967143/2022,BA.5.2.6 @@ -2346972,7 +2346971,7 @@ France/GES-IPP54280/2022,BA.5.2.6 England/PHEC-YY8GXUZ/2022,BA.5.2.6 USA/WA-CDC-LC0989471/2023,BA.5.2.6 Austria/MUIV-0867/2022,BA.5.2.6 -Japan/TKYkbm84051/2023,BA.5.2.6 +Japan/TKYkbm84051/2023,CP.8.1 England/QEUH-3258910E/2022,BA.5.2.6 Japan/PG-452301/2023,BA.5.2.6 Greece/HERA_PHLnetwork-C846/2022,BA.5.2.6 @@ -2347231,7 +2347230,7 @@ Japan/PG-346696/2022,BA.5.2.6 Japan/PG-410614/2022,BA.5.2.6 England/QEUH-325EEA75/2022,BA.5.2.6 USA/WV-CDC-LC0992860/2023,BA.5.2.6 -Australia/WA-9809/2022,BA.5.2.6 +Australia/WA-9809/2022,CP.8.1 Denmark/DCGC-614194/2022,BA.5.2.6 Japan/TKYmbc31644/2023,BA.5.2.6 Canada/QC-L00539954001/2022,BA.5.2.6 @@ -2347524,7 +2347523,7 @@ USA/MI-CDC-QDX44273954/2022,BA.5.2.6 Japan/PG-417186/2022,BA.5.2.6 Russia/AD-RII-MH122404S/2022,BA.5.2.6 Germany/HH-RKI-I-1029792/2022,BA.5.2.6 -Japan/TKYkbm78454/2022,BA.5.2.6 +Japan/TKYkbm78454/2022,CP.8.1 Austria/MUIV-0802/2022,BA.5.2.6 USA/AZ-CDC-STM-2QZKRR3P4/2022,BA.5.2.6 Japan/TKYmbc18460/2022,BA.5.2.6 @@ -2347827,7 +2347826,7 @@ Japan/TKYmbc18406/2022,BA.5.2.6 Japan/PG-458998/2023,BA.5.2.6 Germany/NI-RKI-I-1082285/2022,BA.5.2.6 Japan/PG-438481/2022,BA.5.2.6 -Australia/QLD0x011F22/2022,BA.5.2.6 +Australia/QLD0x011F22/2022,CP.8.1 Japan/TKYhug12064/2022,BA.5.2.6 USA/WI-MCRI-012813/2023,BA.5.2.6 Mauritius/CERI-KRISP-K046710/2022,BA.5.2.6 @@ -2348353,7 +2348352,7 @@ France/CVL-LBZCentre-A31034018385/2022,BA.5.2.6 Netherlands/LI-RIVM-113611/2022,BA.5.2.6 Canada/ON-PHL-23-05085/2023,BA.5.2.6 Japan/TKYmbc23015/2022,BA.5.2.6 -Japan/TKYhug14819/2022,BA.5.2.6 +Japan/TKYhug14819/2022,CP.8.1 Germany/BW-RKI-I-1095225/2023,BA.5.2.6 Japan/PG-426548/2023,BA.5.2.6 Japan/TKYkbm72122/2022,BA.5.2.6 @@ -2348907,7 +2348906,7 @@ USA/NY-URMC-2212B766-1/2022,BA.5.2.6 Japan/TKYhug16129/2023,BA.5.2.6 Japan/PG-398205/2022,BA.5.2.6 Japan/PG-459211/2023,BA.5.2.6 -Australia/WA-9744/2022,BA.5.2.6 +Australia/WA-9744/2022,CP.8.1 Denmark/DCGC-599350/2022,BA.5.2.6 Japan/PG-438718/2023,BA.5.2.6 Spain/VC-FISABIO-113595/2022,BA.5.2.6 @@ -2349341,7 +2349340,7 @@ Germany/BW-RKI-I-1032539/2022,BA.5.2.6 Japan/TKYkbm86292/2023,BA.5.2.6 Australia/VIC74115/2022,BA.5.2.6 USA/CT-YNH-2414/2023,BA.5.2.6 -Japan/RB23-001-71/2023,BA.5.2.6 +Japan/RB23-001-71/2023,CP.8.1 Indonesia/BA-SANGLAHUNUD-C.17.COV.0336/2022,BA.5.2.6 Japan/PG-452306/2023,BA.5.2.6 Japan/RIMD21091/2022,BA.5.2.6 @@ -2349358,7 +2349357,7 @@ USA/IN-CDC-STM-MWPHSKWC2/2022,BA.5.2.6 Japan/PG-442827/2023,BA.5.2.6 Indonesia/JK-WJHL-ITB-NIHRD-W04686/2022,BA.5.2.6 Luxembourg/LNS7277814/2022,BA.5.2.6 -Japan/TKYkbm80870/2023,BA.5.2.6 +Japan/TKYkbm80870/2023,CP.8.1 USA/MA-CDCBI-CRSP_N2Z4HPMNTMJVGAN4/2022,BA.5.2.6 Japan/PG-454954/2023,BA.5.2.6 Japan/PG-435336/2023,BA.5.2.6 @@ -2349500,7 +2349499,7 @@ Japan/PG-415247/2022,BA.5.2.6 USA/WA-CDC-UW22110901406/2022,BA.5.2.6 Singapore/13437/2022,BA.5.2.6 Japan/TKYkbm82621/2023,BA.5.2.6 -Japan/TKYmbc32758/2023,BA.5.2.6 +Japan/TKYmbc32758/2023,CP.8.1 Japan/TKYkbm86932/2023,BA.5.2.6 Italy/EMR_AUSLRomagna_C116-22-10/2022,BA.5.2.6 Japan/PG-403572/2022,BA.5.2.6 @@ -2349663,7 +2349662,7 @@ Japan/TKYkbm83027/2023,BA.5.2.6 Ireland/LK-UHL-658133/2022,BA.5.2.6 USA/ND-NDDH-21576/2022,BA.5.2.6 England/PLYM-3258C235/2022,BA.5.2.6 -Australia/WA9310/2022,BA.5.2.6 +Australia/WA9310/2022,CP.8.1 Turkey/KSS-HEEAH4845949588/2022,BA.5.2.6 Japan/TKYkbm71024/2022,BA.5.2.6 USA/IL-NM-39399/2022,BA.5.2.6