We focused on a region of the spike gene's RBD and S2 domains that contained lineage-defining mutational combinations. The genetic data obtained showed that delta and omicron subvariants were prevalent in the Khyber Pakhtunkhwa (KPK) region from January to February 2022. We also pinpointed a patient who may potentially have been infected with two different strains of SARS-CoV-2, which warrants further investigation. 