We’ve seen several sequences collected early this year in Queensland, Australia being called Omicron unassigned by Pangolin and show similar patterns: ORF1ab mutations are more like from Delta with high alternate freq. However they’re far away from the aforementioned UK sequences (>20 SNPs):
Australia/QLD39476/2022 (ONT low qual.)
Not all of them are available on GISAID so here is the FASTA and VCF
A rough analysis based on scorpio haplotype of above 4 UK sequences and these 4 QLD sequences using AY.4 and BA.1 constellations:
suggesting that there are 2 different breakpoints from 2 independent recombinant events for UK and QLD sequences.
The low number of sequences may not strong enough for new lineage atm but will keep update if situation changes.
Apart from the UK another "Deltacron" Delta / Omicron recombination variant has been found in Australia.
— Gönndalf 🇺🇦 (@drallcome) February 14, 2022
UPDATE 1 – 16th February 2022
There is an ongoing conversation on Github about the possible Australian recombinant sequences, which we have linked to below..