See your #SARS-CoV-2 sequence placement on a global phylogenetic tree, performed by Ultrafast Sample placement on Existing tRees (UShER) (Turakhia et al.) UShER generates local subtrees, displaying the most similar complete, high-coverage samples from GISAID or public sequence databases (NCBI Virus / GenBank, COG-UK and the China National Center for Bioinformation) in the context of the most closely related sequences. Visualize subtrees as @GenomeBrowser custom tracks or using @nextstrain’s interactive display.
Check out training at CDC on how to use UShER: https://www.cdc.gov/amd/training/covid-19-gen-epi-toolkit.html
Thanks to Russ Corbett-Detig, Angie Hinrichs, Yatish Turakhia, Nicola De Maio, RobLanfear, Bryan Thornlow, Landen Gozashti, David Haussler