Table 2.
Cryptic lineage whole genome sequences from nationwide surveys.
| SRA Accession | State | Submitter | Sample Date | Percent cryptic lineage | Genome coverage | Sewershed | PANGO assignment | RBD Changes |
|---|---|---|---|---|---|---|---|---|
| SRR17120725 | CA | Aquavitas | 2021-01-04 | 7% | 27,403 | n/aa | NDb | E484A/Q498H/H519N |
| SRR16638981 | NJ | Aquavitas | 2021-01-18 | 7% | 28,185 | n/aa | NDb | E484A/Q498H/H519N |
| SRR16542155 | NJ | Aquavitas | 2021-01-18 | 7% | 27,295 | n/aa | NDb | E484A/Q498H/H519N |
| SRR16362183 | NJ | Aquavitas | 2021-01-04 | 100% | 15,217 | n/aa | NDb | E484A/Q498H/H519N |
| SRR16038150 | NY | Biobot Analytics | 2021-08-17 | 79% | 28,227 | NY2 | B.1.503 | Y449P/E484A/F490Y/Q498H |
| SRR16038156 | NY | Biobot Analytics | 2021-08-09 | 92% | 24,595 | NY11 | B.1.503 | K417T/K444T/Y449H/N460K/E484A/F490Y/Q498H |
| SRR15706711 | NY | Biobot Analytics | 2021-08-09 | 100% | 11,877 | NY11 | NDb | K417T/K444T/Y449H/N460K/E484A/F490Y/Q498H/A570D |
| SRR15384049 | NY | Biobot Analytics | 2021-07-12 | 99% | 24,001 | NY10 | B.1 | Q493K/Q498Y/H519N/T572N) |
| SRR15291305 | NY | Biobot Analytics | 2021-07-05 | 100% | 22,316 | NY11 | P.1.15 | K417T/K444T/Y449H/E484A/F490Y/Q498H |
| SRR15291304 | NY | Biobot Analytics | 2021-07-04 | 100% | 28,634 | NY10 | B.1 | Q493K/Q498/H519N/T572N |
| SRR15202285 | NY | Biobot Analytics | 2021-06-28 | 100% | 12,209 | NY2 | NDb | K444S/V445K/G446V/Y449R/L452Q/N460K/K462R/S477N/T478E/T478R/DEL483/E484P/F486I/F490P/G496S/Q498Y/P499S/N501T/Y505H/V511I |
| SRR15202284 | NY | Biobot Analytics | 2021-06-28 | 98% | 16,281 | NY14 | NDb | K417T/K444S/DEL445-6/L452R/N460K/S477D/F486V/Q493K/Q498Y/P499S/N501T |
| SRR15202279 | NY | Biobot Analytics | 2021-06-28 | 30% | 21,974 | NY11 | B.1 | N440K/K444S/DEL445-6/L452Q/Y453F/N460K/S477N/D484/F486A/Q493K/Q498K/P499S/N501Y/H519N |
| SRR15128983 | NY | Biobot Analytics | 2021-06-16 | 99% | 21,152 | NY11 | A.29 | K444T/Y449H/E484A/Y489Y/F490Y/Q498H |
| SRR15128978 | NY | Biobot Analytics | 2021-06-16 | 100% | 15,593 | NY10 | NDb | E484A/F486P/S494/Q498Y/H519N |
a
n/a = not available;
ND = none designated