diff --git a/automated-issue-ref.ipynb b/automated-issue-ref.ipynb index 83bf47f0..510d61d8 100755 --- a/automated-issue-ref.ipynb +++ b/automated-issue-ref.ipynb @@ -2,7 +2,7 @@ "cells": [ { "cell_type": "code", - "execution_count": 2, + "execution_count": 6, "id": "f64573a2", "metadata": { "scrolled": true @@ -122,7 +122,15 @@ "processed 1080 milestones\n", "processed 1090 milestones\n", "processed 1100 milestones\n", - "processed 1110 milestones\n" + "processed 1110 milestones\n", + "processed 1120 milestones\n", + "processed 1130 milestones\n", + "processed 1140 milestones\n", + "processed 1150 milestones\n", + "processed 1160 milestones\n", + "processed 1170 milestones\n", + "processed 1180 milestones\n", + "processed 1190 milestones\n" ] } ], @@ -219,7 +227,7 @@ }, { "cell_type": "code", - "execution_count": 3, + "execution_count": 7, "id": "88a367db", "metadata": {}, "outputs": [], @@ -256,7 +264,7 @@ }, { "cell_type": "code", - "execution_count": 4, + "execution_count": 8, "id": "f5b15585", "metadata": {}, "outputs": [], @@ -279,7 +287,7 @@ }, { "cell_type": "code", - "execution_count": 5, + "execution_count": 9, "id": "a56544a8", "metadata": {}, "outputs": [ @@ -287,86 +295,61 @@ "name": "stdout", "output_type": "stream", "text": [ - "['JV.1', 'sars-cov-2-variants/lineage-proposals#760']\n", - "['DV.7.1.3', 'sars-cov-2-variants/lineage-proposals#851']\n", - "['DV.7.1.5', 'sars-cov-2-variants/lineage-proposals#729']\n", - "['JN.3', 'sars-cov-2-variants/lineage-proposals#892']\n", - "['JQ.1', 'sars-cov-2-variants/lineage-proposals#906']\n", + "['DV.7.1.6', 'sars-cov-2-variants/lineage-proposals#765']\n", + "['JN.1.1', 'sars-cov-2-variants/lineage-proposals#987']\n", + "['JN.1.1.1', 'sars-cov-2-variants/lineage-proposals#1097']\n", + "['JN.1.2', 'sars-cov-2-variants/lineage-proposals#1087']\n", + "['JN.4', 'sars-cov-2-variants/lineage-proposals#1009']\n", + "['JN.5.1', 'sars-cov-2-variants/lineage-proposals#954']\n", + "['JN.7', 'sars-cov-2-variants/lineage-proposals#856']\n", + "['JN.10', 'sars-cov-2-variants/lineage-proposals#954']\n", + "['BA.2.86.4', 'sars-cov-2-variants/lineage-proposals#1032']\n", "['JH.2', '#2068']\n", - "['FD.5.1', 'sars-cov-2-variants/lineage-proposals#385']\n", - "['GK.1.2.1', '#2314']\n", - "['GK.1.6', 'sars-cov-2-variants/lineage-proposals#643']\n", - "['GK.1.6.1', 'sars-cov-2-variants/lineage-proposals#643']\n", - "['GK.2.4', 'sars-cov-2-variants/lineage-proposals#823']\n", - "['GK.5', 'sars-cov-2-variants/lineage-proposals#736']\n", - "['GK.5.1', 'sars-cov-2-variants/lineage-proposals#736']\n", - "['GK.6', 'sars-cov-2-variants/lineage-proposals#715']\n", - "['GK.7', 'sars-cov-2-variants/lineage-proposals#907']\n", - "['GK.8', 'sars-cov-2-variants/lineage-proposals#909']\n", - "['GK.8.1', 'sars-cov-2-variants/lineage-proposals#909']\n", - "['GK.10', 'sars-cov-2-variants/lineage-proposals#761']\n", - "['GN.1.3', 'sars-cov-2-variants/lineage-proposals#816']\n", - "['JD.1.1.3', 'sars-cov-2-variants/lineage-proposals#896']\n", - "['KA.1', 'sars-cov-2-variants/lineage-proposals#822']\n", - "['JZ.1', 'sars-cov-2-variants/lineage-proposals#224']\n", - "['HN.2', 'sars-cov-2-variants/lineage-proposals#676']\n", - "['HN.2.1', 'sars-cov-2-variants/lineage-proposals#676']\n", - "['HN.3.1', 'sars-cov-2-variants/lineage-proposals#383']\n", - "['HN.5', 'sars-cov-2-variants/lineage-proposals#936']\n", - "['FL.13.4', 'sars-cov-2-variants/lineage-proposals#638']\n", - "['FL.13.4.1', 'sars-cov-2-variants/lineage-proposals#638']\n", - "['FL.13.5', 'sars-cov-2-variants/lineage-proposals#692']\n", - "['FL.23.2', 'sars-cov-2-variants/lineage-proposals#381']\n", - "['HK.1.2', 'sars-cov-2-variants/lineage-proposals#631']\n", - "['HK.2.1', 'sars-cov-2-variants/lineage-proposals#537']\n", - "['HK.3.4', 'sars-cov-2-variants/lineage-proposals#764']\n", - "['HK.3.5', 'sars-cov-2-variants/lineage-proposals#865']\n", - "['HK.3.6', 'sars-cov-2-variants/lineage-proposals#809']\n", - "['HK.3.7', 'sars-cov-2-variants/lineage-proposals#793']\n", - "['HK.11.1', 'sars-cov-2-variants/lineage-proposals#537']\n", - "['HK.13', 'sars-cov-2-variants/lineage-proposals#537']\n", - "['HK.13.2', 'sars-cov-2-variants/lineage-proposals#943']\n", - "['HK.14', 'sars-cov-2-variants/lineage-proposals#537']\n", - "['HK.15', 'sars-cov-2-variants/lineage-proposals#588']\n", - "['HK.16', 'sars-cov-2-variants/lineage-proposals#841']\n", - "['HK.18', 'sars-cov-2-variants/lineage-proposals#800']\n", - "['JG.3.1', 'sars-cov-2-variants/lineage-proposals#829']\n", - "['HV.1.1', 'sars-cov-2-variants/lineage-proposals#866']\n", - "['HV.1.3', 'sars-cov-2-variants/lineage-proposals#924']\n", - "['JR.1.1', 'sars-cov-2-variants/lineage-proposals#537']\n", - "['EG.6.1.2', 'sars-cov-2-variants/lineage-proposals#826']\n", - "['GA.4.1.3', 'sars-cov-2-variants/lineage-proposals#968']\n", - "['GA.4.3', 'sars-cov-2-variants/lineage-proposals#908']\n", - "['GA.7.1', 'sars-cov-2-variants/lineage-proposals#755']\n", - "['FE.1.1.5', 'sars-cov-2-variants/lineage-proposals#556']\n", - "['GW.5.3', 'sars-cov-2-variants/lineage-proposals#815']\n", - "['GW.5.3.1', 'sars-cov-2-variants/lineage-proposals#815']\n", - "['FY.1.4', 'sars-cov-2-variants/lineage-proposals#165']\n", - "['FY.5.1', 'sars-cov-2-variants/lineage-proposals#929']\n", - "['FY.5.1.1', 'sars-cov-2-variants/lineage-proposals#790']\n", - "['FY.6.2', 'sars-cov-2-variants/lineage-proposals#637']\n", - "['FY.8', 'sars-cov-2-variants/lineage-proposals#635']\n", - "['JC.2', 'sars-cov-2-variants/lineage-proposals#961']\n", - "['JC.5', 'sars-cov-2-variants/lineage-proposals#629']\n", - "['HH.2.1', 'sars-cov-2-variants/lineage-proposals#236']\n", - "['HH.5', 'sars-cov-2-variants/lineage-proposals#438']\n", - "['HH.6', 'sars-cov-2-variants/lineage-proposals#236']\n", - "['HH.8.1', 'sars-cov-2-variants/lineage-proposals#236']\n", - "['JE.1.1', 'sars-cov-2-variants/lineage-proposals#827']\n", - "['GJ.1.2.6', 'sars-cov-2-variants/lineage-proposals#726']\n", - "['GJ.1.2.7', 'sars-cov-2-variants/lineage-proposals#726']\n", - "['GJ.5', 'sars-cov-2-variants/lineage-proposals#429']\n", - "['GJ.5.1', 'sars-cov-2-variants/lineage-proposals#429']\n", - "['GJ.6', 'sars-cov-2-variants/lineage-proposals#675']\n", - "['GJ.7', 'sars-cov-2-variants/lineage-proposals#439']\n", - "['XBB.2.3.15', 'sars-cov-2-variants/lineage-proposals#722']\n", - "['JS.2', 'sars-cov-2-variants/lineage-proposals#722']\n", - "['XBB.2.3.18', 'sars-cov-2-variants/lineage-proposals#738']\n", - "['JY.1', 'sars-cov-2-variants/lineage-proposals#731']\n", - "['XBC.1.6.5', 'sars-cov-2-variants/lineage-proposals#479']\n", - "['JT.1', 'sars-cov-2-variants/lineage-proposals#203']\n", - "['XCZ', 'sars-cov-2-variants/lineage-proposals#839']\n", - "['XDB', 'sars-cov-2-variants/lineage-proposals#969']\n" + "['JD.1.1.5', 'sars-cov-2-variants/lineage-proposals#1079']\n", + "['KC.1', 'sars-cov-2-variants/lineage-proposals#614']\n", + "['KF.1', 'sars-cov-2-variants/lineage-proposals#890']\n", + "['KF.2', 'sars-cov-2-variants/lineage-proposals#1111']\n", + "['HK.3.2.2', 'sars-cov-2-variants/lineage-proposals#867']\n", + "['HK.3.9', 'sars-cov-2-variants/lineage-proposals#1092']\n", + "['HK.3.10', 'sars-cov-2-variants/lineage-proposals#1055']\n", + "['HK.3.12', 'sars-cov-2-variants/lineage-proposals#886']\n", + "['HK.3.13', 'sars-cov-2-variants/lineage-proposals#601']\n", + "['HK.20', 'sars-cov-2-variants/lineage-proposals#537']\n", + "['HK.20.1', 'sars-cov-2-variants/lineage-proposals#537']\n", + "['HK.23.1', 'sars-cov-2-variants/lineage-proposals#537']\n", + "['HK.23.1.1', 'sars-cov-2-variants/lineage-proposals#537']\n", + "['HK.24.1', 'sars-cov-2-variants/lineage-proposals#537']\n", + "['HK.26', 'sars-cov-2-variants/lineage-proposals#763']\n", + "['HK.26.1', 'sars-cov-2-variants/lineage-proposals#763']\n", + "['HK.27.1', 'sars-cov-2-variants/lineage-proposals#525']\n", + "['HK.32', 'sars-cov-2-variants/lineage-proposals#601']\n", + "['HK.33', 'sars-cov-2-variants/lineage-proposals#537']\n", + "['HK.34', 'sars-cov-2-variants/lineage-proposals#905']\n", + "['HK.34.1', 'sars-cov-2-variants/lineage-proposals#1048']\n", + "['HV.1.2', 'sars-cov-2-variants/lineage-proposals#957']\n", + "['HV.1.4', 'sars-cov-2-variants/lineage-proposals#957']\n", + "['HV.1.5', 'sars-cov-2-variants/lineage-proposals#957']\n", + "['HV.1.6.1', 'sars-cov-2-variants/lineage-proposals#957']\n", + "['HV.1.7', 'sars-cov-2-variants/lineage-proposals#957']\n", + "['KB.3', 'sars-cov-2-variants/lineage-proposals#1052']\n", + "['KB.4', 'sars-cov-2-variants/lineage-proposals#891']\n", + "['JR.1.1.1', 'sars-cov-2-variants/lineage-proposals#1015']\n", + "['EG.5.1.16', 'sars-cov-2-variants/lineage-proposals#899']\n", + "['EG.5.1.17', 'sars-cov-2-variants/lineage-proposals#537']\n", + "['EG.5.1.19', 'sars-cov-2-variants/lineage-proposals#537']\n", + "['EG.5.2.4', 'sars-cov-2-variants/lineage-proposals#770']\n", + "['GY.1.1', 'sars-cov-2-variants/lineage-proposals#804']\n", + "['GY.1.1.1', 'sars-cov-2-variants/lineage-proposals#804']\n", + "['XBB.1.16.26', 'sars-cov-2-variants/lineage-proposals#685']\n", + "['GA.10.1', 'sars-cov-2-variants/lineage-proposals#919']\n", + "['KE.2', 'sars-cov-2-variants/lineage-proposals#945']\n", + "['FY.5.2', 'sars-cov-2-variants/lineage-proposals#267']\n", + "['FY.5.4', 'sars-cov-2-variants/lineage-proposals#929']\n", + "['FY.5.5.1', 'sars-cov-2-variants/lineage-proposals#929']\n", + "['FY.8.1', 'sars-cov-2-variants/lineage-proposals#1002']\n", + "['FY.8.1.1', 'sars-cov-2-variants/lineage-proposals#1002']\n", + "['XBC.1.3.1', 'sars-cov-2-variants/lineage-proposals#542']\n", + "['KD.1', 'sars-cov-2-variants/lineage-proposals#673']\n" ] } ], @@ -423,7 +406,7 @@ }, { "cell_type": "code", - "execution_count": 10, + "execution_count": 6, "id": "1c9369e1", "metadata": {}, "outputs": [ @@ -431,9 +414,9 @@ "name": "stdout", "output_type": "stream", "text": [ - "Add 5 references from cov-lineages/pango-designation.\n", + "Add 2 references from cov-lineages/pango-designation.\n", "Upgrade 0 references from cov-lineages/pango-designation.\n", - "Add 18 references from sars-cov-2-variants/lineage-proposals.\n" + "Add 78 references from sars-cov-2-variants/lineage-proposals.\n" ] } ], diff --git a/autoref/milestone.txt b/autoref/milestone.txt index 413206e8..23b3897b 100755 --- a/autoref/milestone.txt +++ b/autoref/milestone.txt @@ -961,7 +961,6 @@ sars#67 GA.4.1 GA.4.1 sars#68 XBB.1.41.2 XBB.1.41.2 sars#69 GE.1.1 GE.1.1 sars#70 GE.1.2 GE.1.2 -sars#71 FL.1.5.2 FL.1.5.2 sars#72 GS.2 GS.2 sars#73 GS.3 GS.3 sars#74 JB.2 JB.2+JB.2.1 @@ -1045,13 +1044,6 @@ sars#151 HV.1.1 HV.1.1 sars#152 HV.1.3 HV.1.3 sars#154 HK.13.2 HK.13.2 sars#156 HK.1.2 HK.1.2 -sars#157 EG.5.1.8 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1 -sars#157 HK.13 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1 -sars#157 HK.1.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1 -sars#157 HK.14 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1 -sars#157 JR.1.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1 -sars#157 HK.2.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1 -sars#157 HK.11.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1 sars#158 HK.15 HK.15 sars#159 GA.4.3 GA.4.3 sars#160 HK.16 HK.16 @@ -1108,7 +1100,6 @@ sars#206 HN.3.1 HN.3.1 sars#207 FY.8 FY.8 sars#208 FY.6.2 FY.6.2 sars#209 FY.1.4 FY.1.4 -sars#211 FY.5.1 FY.5.1 sars#212 FY.5.1.1 FY.5.1.1 sars#213 HN.2 HN.2+HN.2.1 sars#213 HN.2.1 HN.2+HN.2.1 @@ -1117,3 +1108,85 @@ sars#215 XDA XDA sars#216 XDB XDB sars#217 XDC XDC sars#218 HH.5 HH.5 +sars#220 EG.5.1.8 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33 +sars#220 HK.13 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33 +sars#220 HK.1.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33 +sars#220 HK.14 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33 +sars#220 JR.1.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33 +sars#220 HK.2.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33 +sars#220 HK.11.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33 +sars#220 HK.20 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33 +sars#220 HK.20.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33 +sars#220 HK.24.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33 +sars#220 HK.23.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33 +sars#220 HK.23.1.1 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33 +sars#220 EG.5.1.17 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33 +sars#220 EG.5.1.19 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33 +sars#220 HK.33 EG.5.1.8+HK.13+HK.1.1+HK.14+JR.1.1+HK.2.1+HK.11.1,+HK.20+HK.20.1+HK.24.1+HK.23.1+HK.23.1.1+EG.5.1.17+EG.5.1.19+HK.33 +sars#221 JN.4 JN.4 +sars#222 XCT.1 XCT.1 +sars#223 HK.21 HK.21 +sars#224 JD.1.2.1 JD.1.2.1 +sars#225 XBB.1.16.26 XBB.1.16.26 +sars#226 XDD XDD +sars#227 JG.3.3 JG.3.3 +sars#228 JG.3.2 JG.3.2 +sars#229 GK.1.10 GK.1.10 +sars#230 JN.7 JN.7 +sars#231 HR.1.1 HR.1.1 +sars#233 BA.2.86.4 BA.2.86.4 +sars#234 JN.10 JN.10+JN.5.1 +sars#234 JN.5.1 JN.10+JN.5.1 +sars#235 JD.1.1.4 JD.1.1.4 +sars#236 HK.3.8 HK.3.8 +sars#237 HK.3.2.1 HK.3.2.1 +sars#238 FL.15.4 FL.15.4 +sars#240 HK.8.1 HK.8.1 +sars#241 XDE XDE +sars#242 KB.1 KB.1 +sars#243 XBB.1.16.27 XBB.1.16.27 +sars#244 XDF XDF +sars#246 EG.5.2.4 EG.5.2.4+XDG +sars#246 XDG EG.5.2.4+XDG +sars#247 HK.3.10 HK.3.10 +sars#248 HK.3.9 HK.3.9 +sars#250 HK.3.2.2 HK.3.2.2 +sars#252 HK.25 HK.25 +sars#253 KB.4 KB.4 +sars#254 JN.1.1 JN.1.1 +sars#255 HK.26 HK.26+HK.26.1 +sars#255 HK.26.1 HK.26+HK.26.1 +sars#256 FL.1.5.2 FL.1.5.2+KC.1 +sars#256 KC.1 FL.1.5.2+KC.1 +sars#257 HK.27.1 HK.27.1 +sars#258 EG.5.1.16 EG.5.1.16 +sars#259 KB.3 KB.3 +sars#260 DV.7.1.6 DV.7.1.6 +sars#261 JR.1.1.1 JR.1.1.1 +sars#263 GY.1.1 GY.1.1+GY.1.1.1 +sars#263 GY.1.1.1 GY.1.1+GY.1.1.1 +sars#264 KD.1 KD.1 +sars#265 XBC.1.3.1 XBC.1.3.1 +sars#266 JN.1.1.1 JN.1.1.1 +sars#267 JN.1.2 JN.1.2 +sars#268 HV.1.2 HV.1.2+HV.1.5+HV.1.6.1+HV.1.7+HV.1.4 +sars#268 HV.1.5 HV.1.2+HV.1.5+HV.1.6.1+HV.1.7+HV.1.4 +sars#268 HV.1.6.1 HV.1.2+HV.1.5+HV.1.6.1+HV.1.7+HV.1.4 +sars#268 HV.1.7 HV.1.2+HV.1.5+HV.1.6.1+HV.1.7+HV.1.4 +sars#268 HV.1.4 HV.1.2+HV.1.5+HV.1.6.1+HV.1.7+HV.1.4 +sars#271 HK.32 HK.32+HK.3.13 +sars#271 HK.3.13 HK.32+HK.3.13 +sars#272 HK.3.12 HK.3.12 +sars#273 HK.34 HK.34 +sars#274 KE.2 KE.2 +sars#275 JD.1.1.5 JD.1.1.5 +sars#276 FY.5.2 FY.5.2 +sars#277 KF.2 KF.2 +sars#278 KF.1 KF.1 +sars#280 FY.5.1 FY.5.1+FY.5.5.1+FY.5.4 +sars#280 FY.5.5.1 FY.5.1+FY.5.5.1+FY.5.4 +sars#280 FY.5.4 FY.5.1+FY.5.5.1+FY.5.4 +sars#281 FY.8.1 FY.8.1+FY.8.1.1 +sars#281 FY.8.1.1 FY.8.1+FY.8.1.1 +sars#282 HK.34.1 HK.34.1 +sars#283 GA.10.1 GA.10.1 diff --git a/autoref/missing_refs.txt b/autoref/missing_refs.txt index b9eefea7..0dc7e89d 100755 --- a/autoref/missing_refs.txt +++ b/autoref/missing_refs.txt @@ -1,80 +1,55 @@ -JV.1 sars-cov-2-variants/lineage-proposals#760 -DV.7.1.3 sars-cov-2-variants/lineage-proposals#851 -DV.7.1.5 sars-cov-2-variants/lineage-proposals#729 -JN.3 sars-cov-2-variants/lineage-proposals#892 -JQ.1 sars-cov-2-variants/lineage-proposals#906 +DV.7.1.6 sars-cov-2-variants/lineage-proposals#765 +JN.1.1 sars-cov-2-variants/lineage-proposals#987 +JN.1.1.1 sars-cov-2-variants/lineage-proposals#1097 +JN.1.2 sars-cov-2-variants/lineage-proposals#1087 +JN.4 sars-cov-2-variants/lineage-proposals#1009 +JN.5.1 sars-cov-2-variants/lineage-proposals#954 +JN.7 sars-cov-2-variants/lineage-proposals#856 +JN.10 sars-cov-2-variants/lineage-proposals#954 +BA.2.86.4 sars-cov-2-variants/lineage-proposals#1032 JH.2 #2068 -FD.5.1 sars-cov-2-variants/lineage-proposals#385 -GK.1.2.1 #2314 -GK.1.6 sars-cov-2-variants/lineage-proposals#643 -GK.1.6.1 sars-cov-2-variants/lineage-proposals#643 -GK.2.4 sars-cov-2-variants/lineage-proposals#823 -GK.5 sars-cov-2-variants/lineage-proposals#736 -GK.5.1 sars-cov-2-variants/lineage-proposals#736 -GK.6 sars-cov-2-variants/lineage-proposals#715 -GK.7 sars-cov-2-variants/lineage-proposals#907 -GK.8 sars-cov-2-variants/lineage-proposals#909 -GK.8.1 sars-cov-2-variants/lineage-proposals#909 -GK.10 sars-cov-2-variants/lineage-proposals#761 -GN.1.3 sars-cov-2-variants/lineage-proposals#816 -JD.1.1.3 sars-cov-2-variants/lineage-proposals#896 -KA.1 sars-cov-2-variants/lineage-proposals#822 -JZ.1 sars-cov-2-variants/lineage-proposals#224 -HN.2 sars-cov-2-variants/lineage-proposals#676 -HN.2.1 sars-cov-2-variants/lineage-proposals#676 -HN.3.1 sars-cov-2-variants/lineage-proposals#383 -HN.5 sars-cov-2-variants/lineage-proposals#936 -FL.13.4 sars-cov-2-variants/lineage-proposals#638 -FL.13.4.1 sars-cov-2-variants/lineage-proposals#638 -FL.13.5 sars-cov-2-variants/lineage-proposals#692 -FL.23.2 sars-cov-2-variants/lineage-proposals#381 -HK.1.2 sars-cov-2-variants/lineage-proposals#631 -HK.2.1 sars-cov-2-variants/lineage-proposals#537 -HK.3.4 sars-cov-2-variants/lineage-proposals#764 -HK.3.5 sars-cov-2-variants/lineage-proposals#865 -HK.3.6 sars-cov-2-variants/lineage-proposals#809 -HK.3.7 sars-cov-2-variants/lineage-proposals#793 -HK.11.1 sars-cov-2-variants/lineage-proposals#537 -HK.13 sars-cov-2-variants/lineage-proposals#537 -HK.13.2 sars-cov-2-variants/lineage-proposals#943 -HK.14 sars-cov-2-variants/lineage-proposals#537 -HK.15 sars-cov-2-variants/lineage-proposals#588 -HK.16 sars-cov-2-variants/lineage-proposals#841 -HK.18 sars-cov-2-variants/lineage-proposals#800 -JG.3.1 sars-cov-2-variants/lineage-proposals#829 -HV.1.1 sars-cov-2-variants/lineage-proposals#866 -HV.1.3 sars-cov-2-variants/lineage-proposals#924 -JR.1.1 sars-cov-2-variants/lineage-proposals#537 -EG.6.1.2 sars-cov-2-variants/lineage-proposals#826 -GA.4.1.3 sars-cov-2-variants/lineage-proposals#968 -GA.4.3 sars-cov-2-variants/lineage-proposals#908 -GA.7.1 sars-cov-2-variants/lineage-proposals#755 -FE.1.1.5 sars-cov-2-variants/lineage-proposals#556 -GW.5.3 sars-cov-2-variants/lineage-proposals#815 -GW.5.3.1 sars-cov-2-variants/lineage-proposals#815 -FY.1.4 sars-cov-2-variants/lineage-proposals#165 -FY.5.1 sars-cov-2-variants/lineage-proposals#929 -FY.5.1.1 sars-cov-2-variants/lineage-proposals#790 -FY.6.2 sars-cov-2-variants/lineage-proposals#637 -FY.8 sars-cov-2-variants/lineage-proposals#635 -JC.2 sars-cov-2-variants/lineage-proposals#961 -JC.5 sars-cov-2-variants/lineage-proposals#629 -HH.2.1 sars-cov-2-variants/lineage-proposals#236 -HH.5 sars-cov-2-variants/lineage-proposals#438 -HH.6 sars-cov-2-variants/lineage-proposals#236 -HH.8.1 sars-cov-2-variants/lineage-proposals#236 -JE.1.1 sars-cov-2-variants/lineage-proposals#827 -GJ.1.2.6 sars-cov-2-variants/lineage-proposals#726 -GJ.1.2.7 sars-cov-2-variants/lineage-proposals#726 -GJ.5 sars-cov-2-variants/lineage-proposals#429 -GJ.5.1 sars-cov-2-variants/lineage-proposals#429 -GJ.6 sars-cov-2-variants/lineage-proposals#675 -GJ.7 sars-cov-2-variants/lineage-proposals#439 -XBB.2.3.15 sars-cov-2-variants/lineage-proposals#722 -JS.2 sars-cov-2-variants/lineage-proposals#722 -XBB.2.3.18 sars-cov-2-variants/lineage-proposals#738 -JY.1 sars-cov-2-variants/lineage-proposals#731 -XBC.1.6.5 sars-cov-2-variants/lineage-proposals#479 -JT.1 sars-cov-2-variants/lineage-proposals#203 -XCZ sars-cov-2-variants/lineage-proposals#839 -XDB sars-cov-2-variants/lineage-proposals#969 +JD.1.1.5 sars-cov-2-variants/lineage-proposals#1079 +KC.1 sars-cov-2-variants/lineage-proposals#614 +KF.1 sars-cov-2-variants/lineage-proposals#890 +KF.2 sars-cov-2-variants/lineage-proposals#1111 +HK.3.2.2 sars-cov-2-variants/lineage-proposals#867 +HK.3.9 sars-cov-2-variants/lineage-proposals#1092 +HK.3.10 sars-cov-2-variants/lineage-proposals#1055 +HK.3.12 sars-cov-2-variants/lineage-proposals#886 +HK.3.13 sars-cov-2-variants/lineage-proposals#601 +HK.20 sars-cov-2-variants/lineage-proposals#537 +HK.20.1 sars-cov-2-variants/lineage-proposals#537 +HK.23.1 sars-cov-2-variants/lineage-proposals#537 +HK.23.1.1 sars-cov-2-variants/lineage-proposals#537 +HK.24.1 sars-cov-2-variants/lineage-proposals#537 +HK.26 sars-cov-2-variants/lineage-proposals#763 +HK.26.1 sars-cov-2-variants/lineage-proposals#763 +HK.27.1 sars-cov-2-variants/lineage-proposals#525 +HK.32 sars-cov-2-variants/lineage-proposals#601 +HK.33 sars-cov-2-variants/lineage-proposals#537 +HK.34 sars-cov-2-variants/lineage-proposals#905 +HK.34.1 sars-cov-2-variants/lineage-proposals#1048 +HV.1.2 sars-cov-2-variants/lineage-proposals#957 +HV.1.4 sars-cov-2-variants/lineage-proposals#957 +HV.1.5 sars-cov-2-variants/lineage-proposals#957 +HV.1.6.1 sars-cov-2-variants/lineage-proposals#957 +HV.1.7 sars-cov-2-variants/lineage-proposals#957 +KB.3 sars-cov-2-variants/lineage-proposals#1052 +KB.4 sars-cov-2-variants/lineage-proposals#891 +JR.1.1.1 sars-cov-2-variants/lineage-proposals#1015 +EG.5.1.16 sars-cov-2-variants/lineage-proposals#899 +EG.5.1.17 sars-cov-2-variants/lineage-proposals#537 +EG.5.1.19 sars-cov-2-variants/lineage-proposals#537 +EG.5.2.4 sars-cov-2-variants/lineage-proposals#770 +GY.1.1 sars-cov-2-variants/lineage-proposals#804 +GY.1.1.1 sars-cov-2-variants/lineage-proposals#804 +XBB.1.16.26 sars-cov-2-variants/lineage-proposals#685 +GA.10.1 sars-cov-2-variants/lineage-proposals#919 +KE.2 sars-cov-2-variants/lineage-proposals#945 +FY.5.2 sars-cov-2-variants/lineage-proposals#267 +FY.5.4 sars-cov-2-variants/lineage-proposals#929 +FY.5.5.1 sars-cov-2-variants/lineage-proposals#929 +FY.8.1 sars-cov-2-variants/lineage-proposals#1002 +FY.8.1.1 sars-cov-2-variants/lineage-proposals#1002 +XBC.1.3.1 sars-cov-2-variants/lineage-proposals#542 +KD.1 sars-cov-2-variants/lineage-proposals#673 diff --git a/lineage_notes.txt b/lineage_notes.txt index 6f24571f..4955ee8c 100644 --- a/lineage_notes.txt +++ b/lineage_notes.txt @@ -885,7 +885,7 @@ JV.2 Alias of B.1.1.529.2.75.3.4.1.1.1.1.1.7.1.2.2, S:V772I, France/Spain DV.7.1.3 Alias of B.1.1.529.2.75.3.4.1.1.1.1.1.7.1.3, S:A262S, on branch ORF1a:K3353R, from sars-cov-2-variants/lineage-proposals#851 DV.7.1.4 Alias of B.1.1.529.2.75.3.4.1.1.1.1.1.7.1.4, G28001T, on branch ORF1a:K3353R DV.7.1.5 Alias of B.1.1.529.2.75.3.4.1.1.1.1.1.7.1.5, N:T135A, Spain, from sars-cov-2-variants/lineage-proposals#729 -DV.7.1.6 Alias of B.1.1.529.2.75.3.4.1.1.1.1.1.7.1.6, S:Q183K, N:A217S +DV.7.1.6 Alias of B.1.1.529.2.75.3.4.1.1.1.1.1.7.1.6, S:Q183K, N:A217S, from sars-cov-2-variants/lineage-proposals#765 DV.7.1.7 Alias of B.1.1.529.2.75.3.4.1.1.1.1.1.7.1.7, S:V90I DV.7.2 Alias of B.1.1.529.2.75.3.4.1.1.1.1.1.7.2, C703T, England DV.8 Alias of B.1.1.529.2.75.3.4.1.1.1.1.1.8, S:Q613H, C8299T, C19602T, Sweden @@ -1046,25 +1046,25 @@ BA.2.85 Alias of B.1.1.529.2.85, mainly found in Japan, from #983 BA.2.86 Alias of B.1.1.529.2.86, from #2183 BA.2.86.1 Alias of B.1.1.529.2.86.1, ORF1a:K1973R, mostly with C12815T, mainly Europe, from #2236 JN.1 Alias of B.1.1.529.2.86.1.1, S:L455S, ORF1a:R3821K, ORF7b:F19L, Europe -JN.1.1 Alias of B.1.1.529.2.86.1.1.1, ORF1a:F499L, C11747T, France -JN.1.1.1 Alias of B.1.1.529.2.86.1.1.1.1, S:T572I after C9142T, France/Sweden/Poland -JN.1.2 Alias of B.1.1.529.2.86.1.1.2, S:M1229I, USA/Canada +JN.1.1 Alias of B.1.1.529.2.86.1.1.1, ORF1a:F499L, C11747T, France, from sars-cov-2-variants/lineage-proposals#987 +JN.1.1.1 Alias of B.1.1.529.2.86.1.1.1.1, S:T572I after C9142T, France/Sweden/Poland, from sars-cov-2-variants/lineage-proposals#1097 +JN.1.2 Alias of B.1.1.529.2.86.1.1.2, S:M1229I, USA/Canada, from sars-cov-2-variants/lineage-proposals#1087 JN.2 Alias of B.1.1.529.2.86.1.2, ORF1a:Y621C, Europe/North America，from #2284 JN.2.1 Alias of B.1.1.529.2.86.1.2.1, S:S31F, Sweden/Australia JN.3 Alias of B.1.1.529.2.86.1.3, ORF1a:T2087I, Europe, from sars-cov-2-variants/lineage-proposals#892 JN.3.1 Alias of B.1.1.529.2.86.1.3.1, S:L922F, ORf7a:T28I, Spain -JN.4 Alias of B.1.1.529.2.86.1.4, S:A475V, lacking C12815T of most BA.2.86.1, Belgium/Netherlands/Denmark +JN.4 Alias of B.1.1.529.2.86.1.4, S:A475V, lacking C12815T of most BA.2.86.1, Belgium/Netherlands/Denmark, from sars-cov-2-variants/lineage-proposals#1009 JN.5 Alias of B.1.1.529.2.86.1.5, N:T135I -JN.5.1 Alias of B.1.1.529.2.86.1.5.1, S:A475S, T2950A, A28052G, C29541T, England/Belgium +JN.5.1 Alias of B.1.1.529.2.86.1.5.1, S:A475S, T2950A, A28052G, C29541T, England/Belgium, from sars-cov-2-variants/lineage-proposals#954 JN.6 Alias of B.1.1.529.2.86.1.6, S:V193L -JN.7 Alias of B.1.1.529.2.86.1.7, S:G594S, Denmark +JN.7 Alias of B.1.1.529.2.86.1.7, S:G594S, Denmark, from sars-cov-2-variants/lineage-proposals#856 JN.8 Alias of B.1.1.529.2.86.1.8, S:T299I, Sweden/Denmark JN.9 Alias of B.1.1.529.2.86.1.9, S:M1229I, Netherlands -JN.10 Alias of B.1.1.529.2.86.1.10, S:A475V, on T3565C branch with JN.1, Spain/France +JN.10 Alias of B.1.1.529.2.86.1.10, S:A475V, on T3565C branch with JN.1, Spain/France, from sars-cov-2-variants/lineage-proposals#954 BA.2.86.2 Alias of B.1.1.529.2.86.2, ORF7a:E22D, South Africa/Botswana，from sars-cov-2-variants/lineage-proposals/issues/756 BA.2.86.3 Alias of B.1.1.529.2.86.3, C222T, C1960T, T12775C, South Africa JQ.1 Alias of B.1.1.529.2.86.3.1, S:T95I, Denmark/France/South Africa, from sars-cov-2-variants/lineage-proposals#906 -BA.2.86.4 Alias of B.1.1.529.2.86.4, S:A222V, ORF1a:V3892A +BA.2.86.4 Alias of B.1.1.529.2.86.4, S:A222V, ORF1a:V3892A, from sars-cov-2-variants/lineage-proposals#1032 BA.2.86.5 Alias of B.1.1.529.2.86.5, S:I197V, C5575T, T6085C, T23278C BA.3 Alias of B.1.1.529.3, from #367 BA.3.1 Alias of B.1.1.529.3.1, mainly found in Poland, from #540 @@ -1525,7 +1525,7 @@ FB.1 Alias of B.1.1.529.5.3.1.1.1.1.1.2.1.1 S:D253G, Singapore/Taiwan/Japan, fro FB.2 Alias of B.1.1.529.5.3.1.1.1.1.1.2.1.2 S:478R, USA/South Korea/Mongolia BQ.1.2.2 Alias of B.1.1.529.5.3.1.1.1.1.1.2.2, S:K147E, S:R346T, S:V445A, West Africa, from #1861 JH.1 Alias of B.1.1.529.5.3.1.1.1.1.1.2.2.1, S:K182E, S:486A, S:S494P, S:E554K, from #2068 -JH.2 Alias of B.1.1.529.5.3.1.1.1.1.1.2.2.2, S:A484K, S:V486A, USA/Canada/Finland, from sars-cov-2-variants/lineage-proposals#650, from #2068 +JH.2 Alias of B.1.1.529.5.3.1.1.1.1.1.2.2.2, S:A484K, S:V486A, USA/Canada/Finland, from sars-cov-2-variants/lineage-proposals#650, from #2068, from #2068 BQ.1.2.3 Alias of B.1.1.529.5.3.1.1.1.1.1.2.3, E:V24L, Canada BQ.1.3 Alias of B.1.1.529.5.3.1.1.1.1.1.3, found globally, defined by S:E619Q, from #1082 BQ.1.3.1 Alias of B.1.1.529.5.3.1.1.1.1.1.3.1, C2509T, Spain @@ -2933,7 +2933,7 @@ JD.1.1.1 Alias of XBB.1.5.102.1.1.1, S:Y248H, from sars-cov-2-variants/lineage-p JD.1.1.2 Alias of XBB.1.5.102.1.1.2, S:E583D, Ireland/UK, from sars-cov-2-variants/lineage-proposals#754 JD.1.1.3 Alias of XBB.1.5.102.1.1.3, S:T470N, ORF1a:V1584M, France/Denmark, from sars-cov-2-variants/lineage-proposals#896 JD.1.1.4 Alias of XBB.1.5.102.1.1.4, S:E554G, Australia, from #2380 -JD.1.1.5 Alias of XBB.1.5.102.1.1.5, S:Q677R, USA/Canada +JD.1.1.5 Alias of XBB.1.5.102.1.1.5, S:Q677R, USA/Canada, from sars-cov-2-variants/lineage-proposals#1079 JD.1.1.6 Alias of XBB.1.5.102.1.1.6, S:M153V, Brazil JD.1.2 Alias of XBB.1.5.102.1.2, S:P1162S, Brazil, from sars-cov-2-variants/lineage-proposals#136 JD.1.2.1 Alias of XBB.1.5.102.1.2.1, S:E554Q, from sars-cov-2-variants/lineage-proposals#870 @@ -2968,7 +2968,7 @@ HN.4 Alias of XBB.1.9.1.1.5.1.4, ORF1a:T403I HN.5 Alias of XBB.1.9.1.1.5.1.5, S:E554K, from sars-cov-2-variants/lineage-proposals#936 HN.6 Alias of XBB.1.9.1.1.5.1.6, ORF1a:D1933A FL.1.5.2 Alias of XBB.1.9.1.1.5.2, S:N481K, S:H681R, England/France/Denmark, from sars-cov-2-variants/lineage-proposals#614 -KC.1 Alias of XBB.1.9.1.1.5.2.1, S:S490P, ORF1a:T4129I, ORF1a:S723F, Europe +KC.1 Alias of XBB.1.9.1.1.5.2.1, S:S490P, ORF1a:T4129I, ORF1a:S723F, Europe, from sars-cov-2-variants/lineage-proposals#614 KC.1.1 Alias of XBB.1.9.1.1.5.2.1.1, S:V1228L, England FL.1.6 Alias of XBB.1.9.1.1.6, S:N481K, S:Q1208H, from sars-cov-2-variants/lineage-proposals#59 FL.1.7 Alias of XBB.1.9.1.1.7, S:478R, S:C1235F, Indonesia, from #1985 @@ -3024,8 +3024,8 @@ FL.14 Alias of XBB.1.9.1.14, S:V1122M, C29311T, C22978T, Russia/Finland FL.15 Alias of XBB.1.9.1.15, S:F456L (T22928C), ORF1a:E637K, Vietnam/China/South Korea, from #1994 FL.15.1 Alias of XBB.1.9.1.15.1, S:L455F, ORF1a:T2007I, on ORF1a:S2185N branch, from #2293 FL.15.1.1 Alias of XBB.1.9.1.15.1.1, S:A475V, Canada/Romania/Belgium, from sars-cov-2-variants/lineage-proposals#646 -KF.1 Alias of XBB.1.9.1.15.1.1.1, S:P251H, Australia/Canada -KF.2 Alias of XBB.1.9.1.15.1.1.2, S:E183D, England/Australia/New Zealand +KF.1 Alias of XBB.1.9.1.15.1.1.1, S:P251H, Australia/Canada, from sars-cov-2-variants/lineage-proposals#890 +KF.2 Alias of XBB.1.9.1.15.1.1.2, S:E183D, England/Australia/New Zealand, from sars-cov-2-variants/lineage-proposals#1111 FL.15.2 Alias of XBB.1.9.1.15.2, S:Q14H, C1684T, China, from sars-cov-2-variants/lineage-proposals#578 FL.15.3 Alias of XBB.1.9.1.15.3, S:G181V, North America FL.15.4 Alias of XBB.1.9.1.15.4, S:Q14H, on G6819A branch, from #2359 @@ -3104,18 +3104,18 @@ HK.3 Alias of XBB.1.9.2.5.1.1.3, S:L455F, China, from sars-cov-2-variants/lineag HK.3.1 Alias of XBB.1.9.2.5.1.1.3.1, S:F157L, China, from #2193 HK.3.2 Alias of XBB.1.9.2.5.1.1.3.2, S:Q14K, C853T, China，from sars-cov-2-variants/lineage-proposals#730 HK.3.2.1 Alias of XBB.1.9.2.5.1.1.3.2.1, S:Q677H, Canada, from #2362 -HK.3.2.2 Alias of XBB.1.9.2.5.1.1.3.2.2, S:N185D, Australia +HK.3.2.2 Alias of XBB.1.9.2.5.1.1.3.2.2, S:N185D, Australia, from sars-cov-2-variants/lineage-proposals#867 HK.3.3 Alias of XBB.1.9.2.5.1.1.3.3, S:S256L, N:P364L, China/Singapore, from sars-cov-2-variants/lineage-proposals#744 HK.3.4 Alias of XBB.1.9.2.5.1.1.3.4, S:P809S, from sars-cov-2-variants/lineage-proposals#764 HK.3.5 Alias of XBB.1.9.2.5.1.1.3.5, S:P174S, Singapore, from sars-cov-2-variants/lineage-proposals#865 HK.3.6 Alias of XBB.1.9.2.5.1.1.3.6, S:G181R, China, from sars-cov-2-variants/lineage-proposals#809 HK.3.7 Alias of XBB.1.9.2.5.1.1.3.7, S:V171I, Singapore/China, from sars-cov-2-variants/lineage-proposals#793 HK.3.8 Alias of XBB.1.9.2.5.1.1.3.8, S:E554K, China/Sweden, from #2377 -HK.3.9 Alias of XBB.1.9.2.5.1.1.3.9, S:T732I, Australia -HK.3.10 Alias of XBB.1.9.2.5.1.1.3.10, S:A1078S +HK.3.9 Alias of XBB.1.9.2.5.1.1.3.9, S:T732I, Australia, from sars-cov-2-variants/lineage-proposals#1092 +HK.3.10 Alias of XBB.1.9.2.5.1.1.3.10, S:A1078S, from sars-cov-2-variants/lineage-proposals#1055 HK.3.11 Alias of XBB.1.9.2.5.1.1.3.11, S:F186S, China -HK.3.12 Alias of XBB.1.9.2.5.1.1.3.12, S:A688T, USA -HK.3.13 Alias of XBB.1.9.2.5.1.1.3.13, S:Q14R, China +HK.3.12 Alias of XBB.1.9.2.5.1.1.3.12, S:A688T, USA, from sars-cov-2-variants/lineage-proposals#886 +HK.3.13 Alias of XBB.1.9.2.5.1.1.3.13, S:Q14R, China, from sars-cov-2-variants/lineage-proposals#601 HK.4 Alias of XBB.1.9.2.5.1.1.4, S:T883I, China HK.5 Alias of XBB.1.9.2.5.1.1.5, S:Q677H, China HK.6 Alias of XBB.1.9.2.5.1.1.6, S:D253G, ORF1a:A1923T, on T14988C branch UK/USA, from #2184 @@ -3135,29 +3135,29 @@ HK.16 Alias of XBB.1.9.2.5.1.1.16, N:P67S, S:A684V, S:V1264L, from sars-cov-2-va HK.17 Alias of XBB.1.9.2.5.1.1.17, S:S494P, China HK.18 Alias of XBB.1.9.2.5.1.1.18, S:L452R, from sars-cov-2-variants/lineage-proposals#800 HK.19 Alias of XBB.1.9.2.5.1.1.19, S:F157L -HK.20 Alias of XBB.1.9.2.5.1.1.20, S:L455F, on ORF1a:P2144S branch, China -HK.20.1 Alias of XBB.1.9.2.5.1.1.20.1, S:G482R +HK.20 Alias of XBB.1.9.2.5.1.1.20, S:L455F, on ORF1a:P2144S branch, China, from sars-cov-2-variants/lineage-proposals#537 +HK.20.1 Alias of XBB.1.9.2.5.1.1.20.1, S:G482R, from sars-cov-2-variants/lineage-proposals#537 HK.21 Alias of XBB.1.9.2.5.1.1.21, S:T470N, S:796H, from #2367 HK.22 Alias of XBB.1.9.2.5.1.1.22, S:L455F, S:L452Q, Australia/China, from #2357 HK.23 Alias of XBB.1.9.2.5.1.1.23, ORF8:A65V -HK.23.1 Alias of XBB.1.9.2.5.1.1.23.1, S:L455F, ORF1a:T2906N -HK.23.1.1 Alias of XBB.1.9.2.5.1.1.23.1.1, S:A348S, China/Canada +HK.23.1 Alias of XBB.1.9.2.5.1.1.23.1, S:L455F, ORF1a:T2906N, from sars-cov-2-variants/lineage-proposals#537 +HK.23.1.1 Alias of XBB.1.9.2.5.1.1.23.1.1, S:A348S, China/Canada, from sars-cov-2-variants/lineage-proposals#537 HK.24 Alias of XBB.1.9.2.5.1.1.24, S:E654K -HK.24.1 Alias of XBB.1.9.2.5.1.1.24.1, S:L455F, Australia +HK.24.1 Alias of XBB.1.9.2.5.1.1.24.1, S:L455F, Australia, from sars-cov-2-variants/lineage-proposals#537 HK.25 Alias of XBB.1.9.2.5.1.1.25, S:K356T, S:H681R, N:P365L, and 10 more nucs, Germany/Austria/France/US, from #2327 and sars-cov-2-variants/lineage-proposals#986 -HK.26 Alias of XBB.1.9.2.5.1.1.26, S:L455F, ORF3a:L52I, on 14988C branch, Finland -HK.26.1 Alias of XBB.1.9.2.5.1.1.26.1, S:A475V, Finland, formerly HK.3.11 +HK.26 Alias of XBB.1.9.2.5.1.1.26, S:L455F, ORF3a:L52I, on 14988C branch, Finland, from sars-cov-2-variants/lineage-proposals#763 +HK.26.1 Alias of XBB.1.9.2.5.1.1.26.1, S:A475V, Finland, formerly HK.3.11, from sars-cov-2-variants/lineage-proposals#763 HK.27 Alias of XBB.1.9.2.5.1.1.27, ORF1a:T1589I, China -HK.27.1 Alias of XBB.1.9.2.5.1.1.27.1, S:L455F, China +HK.27.1 Alias of XBB.1.9.2.5.1.1.27.1, S:L455F, China, from sars-cov-2-variants/lineage-proposals#525 HK.27.1.1 Alias of XBB.1.9.2.5.1.1.27.1.1, S:Q14H, China HK.28 Alias of XBB.1.9.2.5.1.1.28, C19170T, China HK.29 Alias of XBB.1.9.2.5.1.1.29, ORF1a:G2509D, North America HK.30 Alias of XBB.1.9.2.5.1.1.30, T26609C, China HK.31 Alias of XBB.1.9.2.5.1.1.31, ORF1a:G604S -HK.32 Alias of XBB.1.9.2.5.1.1.32, S:Q14R, ORF1a:S2193F, China -HK.33 Alias of XBB.1.9.2.5.1.1.33, S:L455F on C2644T branch, North America -HK.34 Alias of XBB.1.9.2.5.1.1.34, S:F186S, ORF1a:V3660M, on C2644T branch, Singapore -HK.34.1 Alias of XBB.1.9.2.5.1.1.34, S:K356T, Singapore +HK.32 Alias of XBB.1.9.2.5.1.1.32, S:Q14R, ORF1a:S2193F, China, from sars-cov-2-variants/lineage-proposals#601 +HK.33 Alias of XBB.1.9.2.5.1.1.33, S:L455F on C2644T branch, North America, from sars-cov-2-variants/lineage-proposals#537 +HK.34 Alias of XBB.1.9.2.5.1.1.34, S:F186S, ORF1a:V3660M, on C2644T branch, Singapore, from sars-cov-2-variants/lineage-proposals#905 +HK.34.1 Alias of XBB.1.9.2.5.1.1.34, S:K356T, Singapore, from sars-cov-2-variants/lineage-proposals#1048 EG.5.1.2 Alias of XBB.1.9.2.5.1.2, Japan, ORF1b:V1644I, from sars-cov-2-variants/lineage-proposals#301 EG.5.1.3 Alias of XBB.1.9.2.5.1.3, ORF1a:R542C, C22570T, from sars-cov-2-variants/lineage-proposals#222 JG.1 Alias of XBB.1.9.2.5.1.3.1, S:T732I, France, from #2218 @@ -3173,38 +3173,38 @@ EG.5.1.5 Alias of XBB.1.9.2.5.1.5, ORF1a:L3293I, ORF1b:T1274I, ORF1b:L2349V, Por EG.5.1.6 Alias of XBB.1.9.2.5.1.6, S:F157L, ORF1a:S1857L, USA, from sars-cov-2-variants/lineage-proposals#394 HV.1 Alias of XBB.1.9.2.5.1.6.1, S:L452R, USA HV.1.1 Alias of XBB.1.9.2.5.1.6.1.1, S:K444T, on ORF1a:T4083M branch, USA, from sars-cov-2-variants/lineage-proposals#866 -HV.1.2 Alias of XBB.1.9.2.5.1.6.1.2, S:S514F, on ORF1a:T4083M branch, USA +HV.1.2 Alias of XBB.1.9.2.5.1.6.1.2, S:S514F, on ORF1a:T4083M branch, USA, from sars-cov-2-variants/lineage-proposals#957 HV.1.3 Alias of XBB.1.9.2.5.1.6.1.3, S:493L, USA, from sars-cov-2-variants/lineage-proposals#924 -HV.1.4 Alias of XBB.1.9.2.5.1.6.1.4, S:A1078S, USA -HV.1.5 Alias of XBB.1.9.2.5.1.6.1.5, S:L1265F, USA/Canada +HV.1.4 Alias of XBB.1.9.2.5.1.6.1.4, S:A1078S, USA, from sars-cov-2-variants/lineage-proposals#957 +HV.1.5 Alias of XBB.1.9.2.5.1.6.1.5, S:L1265F, USA/Canada, from sars-cov-2-variants/lineage-proposals#957 HV.1.6 Alias of XBB.1.9.2.5.1.6.1.6, ORF1a:T1794I, ORF1a:P2018S, Canada/USA -HV.1.6.1 Alias of XBB.1.9.2.5.1.6.1.6.1, S:S704L, Canada -HV.1.7 Alias of XBB.1.9.2.5.1.6.1.7, S:S221L, Canada +HV.1.6.1 Alias of XBB.1.9.2.5.1.6.1.6.1, S:S704L, Canada, from sars-cov-2-variants/lineage-proposals#957 +HV.1.7 Alias of XBB.1.9.2.5.1.6.1.7, S:S221L, Canada, from sars-cov-2-variants/lineage-proposals#957 EG.5.1.7 Alias of XBB.1.9.2.5.1.7, S:K278N EG.5.1.8 Alias of XBB.1.9.2.5.1.8, S:L455F, China, on C29762T branch, from sars-cov-2-variants/lineage-proposals#537 KB.1 Alias of XBB.1.9.2.5.1.8.1, S:E654V, China, from #2347 KB.2 Alias of XBB.1.9.2.5.1.8.2, S:R214H -KB.3 Alias of XBB.1.9.2.5.1.8.2, S:A83T -KB.4 Alias of XBB.1.9.2.5.1.8.2, S:T95I +KB.3 Alias of XBB.1.9.2.5.1.8.2, S:A83T, from sars-cov-2-variants/lineage-proposals#1052 +KB.4 Alias of XBB.1.9.2.5.1.8.2, S:T95I, from sars-cov-2-variants/lineage-proposals#891 EG.5.1.9 Alias of XBB.1.9.2.5.1.9, S:L176F (on ORF1a:D982G branch) EG.5.1.10 Alias of XBB.1.9.2.5.1.10, ORF1a:I3758V, Portugal/Spain EG.5.1.11 Alias of XBB.1.9.2.5.1.11, S:K182Q, Indonesia JR.1 Alias of XBB.1.9.2.5.1.11.1, S:478R, ORF3a:Y91C, Indonesia JR.1.1 Alias of XBB.1.9.2.5.1.11.1.1, S:L455F (G22927C), from sars-cov-2-variants/lineage-proposals#537 -JR.1.1.1 Alias of XBB.1.9.2.5.1.11.1.1.1, S:K356Q, Thailand +JR.1.1.1 Alias of XBB.1.9.2.5.1.11.1.1.1, S:K356Q, Thailand, from sars-cov-2-variants/lineage-proposals#1015 EG.5.1.12 Alias of XBB.1.9.2.5.1.12, T26972C, C28909T EG.5.1.13 Alias of XBB.1.9.2.5.1.13, C12439T EG.5.1.14 Alias of XBB.1.9.2.5.1.14, C16017T, C19524T EG.5.1.15 Alias of XBB.1.9.2.5.1.15, ORF1a:T753I -EG.5.1.16 Alias of XBB.1.9.2.5.1.16, ORF1b:A2431V -EG.5.1.17 Alias of XBB.1.9.2.5.1.17, S:L455F (G22927C), China +EG.5.1.16 Alias of XBB.1.9.2.5.1.16, ORF1b:A2431V, from sars-cov-2-variants/lineage-proposals#899 +EG.5.1.17 Alias of XBB.1.9.2.5.1.17, S:L455F (G22927C), China, from sars-cov-2-variants/lineage-proposals#537 EG.5.1.18 Alias of XBB.1.9.2.5.1.18, ORF1a:G3002S, ORF3a:S220I -EG.5.1.19 Alias of XBB.1.9.2.5.1.19, S:L455F, ORF1b:K1383R, ORF3a:M260K +EG.5.1.19 Alias of XBB.1.9.2.5.1.19, S:L455F, ORF1b:K1383R, ORF3a:M260K, from sars-cov-2-variants/lineage-proposals#537 EG.5.2 Alias of XBB.1.9.2.5.2, N:L161F EG.5.2.1 Alias of XBB.1.9.2.5.2.1, S:S704L, USA, from sars-cov-2-variants/lineage-proposals#189 EG.5.2.2 Alias of XBB.1.9.2.5.2.2, ORF1b:T239I, China EG.5.2.3 Alias of XBB.1.9.2.5.2.3, S:S704L, S:N1178D, Austria/USA, from sars-cov-2-variants/lineage-proposals#353 -EG.5.2.4 Alias of XBB.1.9.2.5.2.4, S:K679R, on ORF3a:I118V branch +EG.5.2.4 Alias of XBB.1.9.2.5.2.4, S:K679R, on ORF3a:I118V branch, from sars-cov-2-variants/lineage-proposals#770 EG.6 Alias of XBB.1.9.2.6, C1684T, Israel EG.6.1 Alias of XBB.1.9.2.6.1, S:456L (T22928C), Israel/Japan/Canada, from #1950 EG.6.1.1 Alias of XBB.1.9.2.6.1.1, S:484K, S:L242I, from sars-cov-2-variants/lineage-proposals#546 @@ -3259,8 +3259,8 @@ FU.4 Alias of XBB.1.16.1.4, S:Y453F, T29410C, from #1832 FU.5 Alias of XBB.1.16.1.5, S:K97E, ORF1a:R542C, Bangladesh, from #2137 XBB.1.16.2 Defined by ORF3a:V13L, ORF1a:P926H, India, from #1802 GY.1 Alias of XBB.1.16.2.1, S:L84I, ORF1a:A4068S, China, from #2066 -GY.1.1 Alias of XBB.1.16.2.1.1, S:F456L, S:L455F, China -GY.1.1.1 Alias of XBB.1.16.2.1.1.1, S:A475V, Thailand +GY.1.1 Alias of XBB.1.16.2.1.1, S:F456L, S:L455F, China, from sars-cov-2-variants/lineage-proposals#804 +GY.1.1.1 Alias of XBB.1.16.2.1.1.1, S:A475V, Thailand, from sars-cov-2-variants/lineage-proposals#804 GY.2 Alias of XBB.1.16.2.2, S:T883I GY.2.1 Alias of XBB.1.16.2.2.1, S:S255F, South Korea GY.3 Alias of XBB.1.16.2.3, S:M177I, Thailand @@ -3300,7 +3300,7 @@ XBB.1.16.22 ORF3a:E242Q, from #1893 XBB.1.16.23 S:K304Q, India/USA/Japan/Singapore, from #2187 XBB.1.16.24 S:K182E, S:V551I, S:E554K, on A25410G branch, India, from #2223 XBB.1.16.25 ORF1a:K510E, C16611T, A29221G -XBB.1.16.26 S:L455F, S:F456L, China +XBB.1.16.26 S:L455F, S:F456L, China, from sars-cov-2-variants/lineage-proposals#685 XBB.1.16.27 S:F456L, S:E554K, ORF1a:A3889T, France, from #2345 XBB.1.17 Defined by T27995C and ORF1a:L469F, from #1712 XBB.1.17.1 Defined by S:215H, S:S486P, from #1712 @@ -3326,7 +3326,7 @@ GA.8 Alias of XBB.1.17.1.8, C3619T, C27389T, Congo GA.8.1 Alias of XBB.1.17.1.8.1, S:K182E, S:S494P, S:E554K, France/Belgium GA.9 Alias of XBB.1.17.1.9, ORF3a:K67N,T7534C,C29719A GA.10 Alias of XBB.1.17.1.10, ORF1a:V4520I, Mali -GA.10.1 Alias of XBB.1.17.1.10.1, S:L455F, S:F456L, S:K478R, ORF1a:A776V, ORF1a:F1214S, ORF1b:K1947R +GA.10.1 Alias of XBB.1.17.1.10.1, S:L455F, S:F456L, S:K478R, ORF1a:A776V, ORF1a:F1214S, ORF1b:K1947R, from sars-cov-2-variants/lineage-proposals#919 XBB.1.17.2 Defined by ORF1a:A698S, Russia, from #1712 XBB.1.18 Defined by A8001G, Brazil XBB.1.18.1 Defined by S:F486P, Brazil @@ -3351,7 +3351,7 @@ GW.5 Alias of XBB.1.19.1.5, S:K478I, S:L455F, S:F456L(T22928C), Pakistan, from # GW.5.1 Alias of XBB.1.19.1.5.1, ORF3a:W149C, Pakistan GW.5.1.1 Alias of XBB.1.19.1.5.1.1, S:A475V, S:F79S, Pakistan, from #2277 KE.1 Alias of XBB.1.19.1.5.1.1.1, S:F186S, England/Wales -KE.2 Alias of XBB.1.19.1.5.1.1.2, S:S704L, UK +KE.2 Alias of XBB.1.19.1.5.1.1.2, S:S704L, UK, from sars-cov-2-variants/lineage-proposals#945 KE.3 Alias of XBB.1.19.1.5.1.1.3, ORF1a:L3641S, ORF1a:T5131I, ORF7a:M1K, UK GW.5.2 Alias of XBB.1.19.1.5.2, N:T379I GW.5.3 Alias of XBB.1.19.1.5.3, T20310C, C28519T, from sars-cov-2-variants/lineage-proposals#815 @@ -3381,18 +3381,18 @@ FY.4.2 Alias of XBB.1.22.1.4.2, ORF1a:Y2171F, ORF1b:V2287I, Kenya/USA/Japan, fro FY.5 Alias of XBB.1.22.1.5, S:478R, Indonesia, from #1965 FY.5.1 Alias of XBB.1.22.1.5.1, S:T572I, from sars-cov-2-variants/lineage-proposals#929 FY.5.1.1 Alias of XBB.1.22.1.5.1.1, S:M153I, S:F186S, S:S247N, from sars-cov-2-variants/lineage-proposals#790 -FY.5.2 Alias of XBB.1.22.1.5.2, S:L176F, Indonesia, on A6019G branch +FY.5.2 Alias of XBB.1.22.1.5.2, S:L176F, Indonesia, on A6019G branch, from sars-cov-2-variants/lineage-proposals#267 FY.5.3 Alias of XBB.1.22.1.5.3, S:A222V, Singapore/Japan, on A6019G branch -FY.5.4 Alias of XBB.1.22.1.5.4, S:T572I, ORF1a:D3009N, ORF1a:Y4077C on A6019G branch +FY.5.4 Alias of XBB.1.22.1.5.4, S:T572I, ORF1a:D3009N, ORF1a:Y4077C on A6019G branch, from sars-cov-2-variants/lineage-proposals#929 FY.5.5 Alias of XBB.1.22.1.5.5, ORF1a:M2796I -FY.5.5.1 Alias of XBB.1.22.1.5.5.1, S:T572I +FY.5.5.1 Alias of XBB.1.22.1.5.5.1, S:T572I, from sars-cov-2-variants/lineage-proposals#929 FY.6 Alias of XBB.1.22.1.6, ORF1a:A591V FY.6.1 Alias of XBB.1.22.1.6.1, S:S939F, Japan FY.6.2 Alias of XBB.1.22.1.6.2, ORF1a:A3143V, ins_S:216:SLQGN, Japan, from sars-cov-2-variants/lineage-proposals#637 FY.7 Alias of XBB.1.22.1.7, S:G769A, S:D1168E, from sars-cov-2-variants/lineage-proposals#257 FY.8 Alias of XBB.1.22.1.8, S:T572I, from sars-cov-2-variants/lineage-proposals#635 -FY.8.1 Alias of XBB.1.22.1.8.1, S:478R, T4579A -FY.8.1.1 Alias of XBB.1.22.1.8.1.1, S:P521Q, ORF1b:V1149L +FY.8.1 Alias of XBB.1.22.1.8.1, S:478R, T4579A, from sars-cov-2-variants/lineage-proposals#1002 +FY.8.1.1 Alias of XBB.1.22.1.8.1.1, S:P521Q, ORF1b:V1149L, from sars-cov-2-variants/lineage-proposals#1002 FY.9 Alias of XBB.1.22.1.9, S:Q675K, ORF1a:D220E, ORF1a:C667Y, Indonesia from #2053 XBB.1.22.2 Defined by ORF1a:L3829F, C15237T HU.1 Alias of XBB.1.22.2.1, S:K529N, France, from #2136 @@ -3587,8 +3587,8 @@ XBC.1.1.2 S:L244F, ORF7b:L32F, Australia XBC.1.2 Philippines/Netherlands/Denmark, T11269C XBC.1.2.1 Denmark, ORF1b:T132I XBC.1.3 Philippines/Australia, C25614T -XBC.1.3.1 ORF1a:Q455K, ORF1a:T4174I, ORF1a:V2061A, ORF1b:S759N, Australia/New Zealand -KD.1 Alias of XBC.1.3.1.1, S:R346S, Australia +XBC.1.3.1 ORF1a:Q455K, ORF1a:T4174I, ORF1a:V2061A, ORF1b:S759N, Australia/New Zealand, from sars-cov-2-variants/lineage-proposals#542 +KD.1 Alias of XBC.1.3.1.1, S:R346S, Australia, from sars-cov-2-variants/lineage-proposals#673 KD.2 Alias of XBC.1.3.1.2, ORF1a:M3661L, ORF1a:M3934I, Australia/New Zealand KD.3 Alias of XBC.1.3.1.3, C10519T, C19524T, New Zealand KD.4 Alias of XBC.1.3.1.4, ORF1a:K394R, ORF1a:L730F, ORF1a:T965I, Australia/Japan