virSEAK (RUO - research use only) offers quick and convenient comparison of your SARS-CoV-2 sequence to the available sequences. After a personalized setup with your kit, simply load fastq- or fasta data and obtain an aligned sequence with variants.
Additionally, your sequence will be assigned to a pangolin lineage (e.g. B.1.1.7) and a GISAID clade (e.g. L).
virSEAK also automatically checks whether your sequence contains the spike protein variants N501Y and or E484K.
Coverage and Quality values are shown, including: required-, absolute-, average- and median coverage, % of “wild type” and “N” bases. A quality indicator shows if the quality satisfies the defined quality thresholds.