Table. Candidate recombinant samples, states, collection dates, and Bolotie outputs for the SARS-CoV-2 AY.119.2:BA.1.1 recombinant cluster, United States*.

GISAID accession no.	State	GISAID virus name	Collection date	Bolotie results
EPI_ISL_8720194	TN	hCoV-19/USA/TN-CDC-ASC210559252/2021	2021 Dec 31	21J (Delta): 1-22032; 21K (Omicron): 22033-29903
EPI_ISL_9147438	NJ	hCoV-19/USA/NJ-CDC-IBX952397337138/2022	2022 Jan 4	21J (Delta): 1-22032; 21K (Omicron): 22033-29903
EPI_ISL_8981712	PA	hCoV-19/USA/PA-CDC-LC0473996/2022	2022 Jan 4	21J (Delta): 1-22032; 21K (Omicron): 22033-29903
EPI_ISL_8981824	PA	hCoV-19/USA/PA-CDC-LC0474055/2022	2022 Jan 4	21J (Delta): 1-22032; 21K (Omicron): 22033-29903
EPI_ISL_8981459	PA	hCoV-19/USA/PA-CDC-LC0474301/2022	2022 Jan 4	21J (Delta): 1-22032; 21K (Omicron): 22033-29903
EPI_ISL_9088187	MA	hCoV-19/USA/MA-CDC-STM-HZEBR92XC/2022	2022 Jan 12	21J (Delta): 1-22032; 21K (Omicron): 22033-29903
EPI_ISL_9147935	NJ	hCoV-19/USA/NJ-CDC-IBX640654818289/2022	2022 Jan 12	21J (Delta): 1-22032; 21K (Omicron): 22033-29903
EPI_ISL_10389336	NJ	hCoV-19/USA/NJ-CDC-ASC210553977/2022	2022 Feb 12	21J (Delta): 1-22032; 21K (Omicron): 22033-29903
EPI_ISL_10389339	NJ	hCoV-19/USA/NJ-CDC-ASC210553978/2022	2022 Feb 12	21J (Delta): 1-22032; 21K (Omicron): 22033-29903

*These 9 candidate recombinant viruses were identified by an exhaustive search of publicly available SARS-CoV-2 viral genomes with orf1ab:2855V,4176N,6248S and S:95I,142D,157-,346K,501Y mutations. hCoV-19/USA/PA-CDC-LC0474055/2022 and hCoV-19/USA/PA-CDC-LC0474301/2022 underwent resequencing at the Centers for Disease Control and Prevention. Bolotie (3) identified all 9 as recombinant genomes between Delta (clade 21J) and Omicron (clade 21K). Bolotie cannot determine the true breakpoint because of high sequence homology, but the same region is identified for all 9 sequences (nt position 22032 as referenced to GenBank accession no. NC_045512.2).