Japan COVID-19 Open Data Consortium, @UTokyo_News_en, Royal Medical Services Jordan, @UKM_UMBI, Medical Research Institute Sri Lanka, @CreativeSoftLK, Kaohsiung Medical University, VG-CARE, Central Research Institute of Epidemiology Belarus
4/7
We've just updated Nextstrain clade designations to partition clade 21A (corresponding to the Delta WHO variant) into subclades 21I and 21J following our previously defined rules for defining clades when mutational and frequency thresholds are met. 1/4
Clade 21I is still a Delta variant virus, but possesses additional spike mutation A222V and ORF1a mutations P1640L, A3209V, V3718A and T3750I. 2/4
Clade 21J is still a Delta variant virus, but possesses additional ORF1a mutations A1306S, P2046L, P2287S, V2930L, T3255I and T3646A, ORF7b mutation T40I, as well as N mutation G215C. Clade 21J is now the predominate form of Delta with an estimated ~79% global frequency. 3/4
We have just released a new version of the Nextclade web application clades.nextstrain.org for #SARSCOV2. We now use Nextalign (C++ via wasm) under the hood, which allows for many new exacting features!
A quick tour!
1/7
Analysis now takes a few seconds to start, but overall it has become much faster and analyzing hundreds of sequences should be no problem. You can download the reference alignments, including translations of SARS-CoV-2 genes, for further analyses.
2/7
You can now examine the diversity of the nucleotide alignment and alignments of different proteins. Select a gene from the drop-down or click on a gene in the genome annotation panel below.