diff --git a/lineage_notes.txt b/lineage_notes.txt
index 60e0359e..f47d5c67 100644
--- a/lineage_notes.txt
+++ b/lineage_notes.txt
@@ -1177,6 +1177,7 @@ JN.1.36.1	Alias of B.1.1.529.2.86.1.1.36.1, S:S680F, South Korea, from sars-cov-
 JN.1.37	Alias of B.1.1.529.2.86.1.1.37, S:S680F
 JN.1.38	Alias of B.1.1.529.2.86.1.1.38, ORF1b:R1736K, USA
 JN.1.39	Alias of B.1.1.529.2.86.1.1.39, G2782T
+JN.1.39.1	Alias of B.1.1.529.2.86.1.1.39.1, S:R346T, S:F456L, C21034T, T25631C, A16011G, T6913C
 JN.1.40	Alias of B.1.1.529.2.86.1.1.40, S:S31P, Mexico, from sars-cov-2-variants/lineage-proposals#1451
 JN.1.41	Alias of B.1.1.529.2.86.1.1.41, S:S1252F, on A29086T, USA, from sars-cov-2-variants/lineage-proposals#1256
 JN.1.42	Alias of B.1.1.529.2.86.1.1.42, C5581A, South America
diff --git a/lineages.csv b/lineages.csv
index 740eb558..cd597a6d 100644
--- a/lineages.csv
+++ b/lineages.csv
@@ -2524814,9 +2524814,7 @@ England/WSI-331E4612/2024,JN.1.16.1
 USA/NY-GBW-H20-360-2748/2024,JN.1.16.1
 USA/AZ-CDC-QDX93093017/2024,JN.1.16.1
 USA/DE-CDC-LC1096961/2024,JN.1.16.1
-USA/VA-CDC-LC1098483/2024,JN.1.16.1
 South_Korea/KDCA286891/2024,JN.1.16.1
-SouthKorea/KDCA286891/2024,JN.1.16.1
 USA/MN-MDH-40801/2024,JN.1.16.1
 USA/VA-GBW-H20-355-6644/2024,JN.1.16.1
 USA/DE-DHSS-B1289881/2024,JN.1.16.1
@@ -2544350,3 +2544348,63 @@ Australia/VIC-VIDRL-00013680/2024,LG.1
 Australia/VIC-VIDRL-00013677/2024,LG.1
 Australia/SA1444007/2024,LG.1
 Australia/SA1354463/2024,LG.1
+USA/VA-CDC-LC1098483/2024,JN.1.39.1
+Spain/PV-HUD-70105647/2024,JN.1.39.1
+USA/VA-VTVAS3-GSC45324/2024,JN.1.39.1
+England/CLIMB-CM7YE65B/2024,JN.1.39.1
+USA/NY-CDC-LC1102796/2024,JN.1.39.1
+England/CLIMB-CM7YKE8J/2024,JN.1.39.1
+England/CLIMB-CM7YJ3D7/2024,JN.1.39.1
+England/CLIMB-CM7YKOYH/2024,JN.1.39.1
+Wales/CLIMB-CM7YK8QD/2024,JN.1.39.1
+Wales/CLIMB-CM7YGKOG/2024,JN.1.39.1
+Wales/CLIMB-CM7YFP8X/2024,JN.1.39.1
+Wales/CLIMB-CM7YR7QH/2024,JN.1.39.1
+Wales/CLIMB-CM7YERS7/2024,JN.1.39.1
+Wales/CLIMB-CM7YJN1G/2024,JN.1.39.1
+Wales/CLIMB-CM7YGBQX/2024,JN.1.39.1
+SouthKorea/KDCA291713/2024,JN.1.39.1
+SouthKorea/KDCA292699/2024,JN.1.39.1
+SouthKorea/KDCA292197/2024,JN.1.39.1
+SouthKorea/KDCA289577/2024,JN.1.39.1
+SouthKorea/KDCA290120/2024,JN.1.39.1
+SouthKorea/KDCA290119/2024,JN.1.39.1
+SouthKorea/KDCA290806/2024,JN.1.39.1
+SouthKorea/KDCA290837/2024,JN.1.39.1
+SouthKorea/KDCA290790/2024,JN.1.39.1
+SouthKorea/KDCA292357/2024,JN.1.39.1
+SouthKorea/KDCA286891/2024,JN.1.39.1
+SouthKorea/KDCA292417/2024,JN.1.39.1
+SouthKorea/KDCA292380/2024,JN.1.39.1
+SouthKorea/KDCA291834/2024,JN.1.39.1
+SouthKorea/KDCA291963/2024,JN.1.39.1
+SouthKorea/KDCA291984/2024,JN.1.39.1
+England/CLIMB-CM7YF147/2024,JN.1.39.1
+France/IDF-IPP04858/2024,JN.1.39.1
+France/GES-RELAB-IPP04898/2024,JN.1.39.1
+Spain/CT-LabRefCat-8920115/2024,JN.1.39.1
+Spain/CT-HUGTiP-E1R177/2024,JN.1.39.1
+England/CLIMB-CM7YKD3S/2024,JN.1.39.1
+SouthKorea/KDCA289275/2024,JN.1.39.1
+France/PAC-RELAB-HCL724000137001/2024,JN.1.39.1
+Ireland/G-LUH-N2463/2024,JN.1.39.1
+Ireland/D-NVRL-RIRL00024565/2024,JN.1.39.1
+USA/MA-CDC-QDX95955421/2024,JN.1.39.1
+Ireland/MO-NVRL-GIRL00031067/2024,JN.1.39.1
+Ireland/G-LUH-N2464/2024,JN.1.39.1
+France/IDF-IPP04663/2024,JN.1.39.1
+Ireland/G-LUH-N2462/2024,JN.1.39.1
+Ireland/G-LUH-N2461/2024,JN.1.39.1
+France/OCC-RELAB-HCL724000136101/2024,JN.1.39.1
+France/OCC-HCL724000138801/2024,JN.1.39.1
+France/OCC-CHU-TLS-6004640440/2024,JN.1.39.1
+France/OCC-HCL724000136501/2024,JN.1.39.1
+Spain/GA-SCQ_162352/2024,JN.1.39.1
+Ireland/G-GUH-N2448/2024,JN.1.39.1
+Ireland/G-GUH-N2446/2024,JN.1.39.1
+Ireland/G-GUH-N2449/2024,JN.1.39.1
+France/ARA-HCL724000138101/2024,JN.1.39.1
+France/ARA-HCL124011857701/2024,JN.1.39.1
+France/ARA-RELAB-HCL724000139101/2024,JN.1.39.1
+France/ARA-HCL024055147001/2024,JN.1.39.1
+France/ARA-HCL024053852701/2024,JN.1.39.1