This is a demonstration environment. It may contain non-accurate test data and should not be used for real-world applications. Data will be deleted regularly.

LOC_00D9A3M.1

USA/LOC_00D9A3M.1/2026-09-08
A. P. Rothstein, G. Muir, A. Simas, A. Sum, B. Girinathan, P. Leeson & D. Gratalo

Perimeter, Bioinformatics

Sample details

Collection date
2026-09-08
Earliest release date
2026-09-22
Sampling location
USA (California)
Isolate name
SARS-CoV-2/human/USA/SFO-GKISBBBK88232/2026

Data use terms

Data use terms
OPEN
Data use terms URL

INSDC

NCBI release date
2026-09-22
NCBI update date
2026-09-22
INSDC accession
BioProject accession
BioSample accession
Raw reads accession

Host

Host

Submission details

Submission ID
QB045824.1
Submitting group
Date submitted
2026-09-28 21:13:44 UTC
Date released
2026-09-28 21:46:02 UTC

Lineage

Nextstrain clade
25C
Pango lineage
RV.1.3

Alignment and QC

Total SNPs
156
Total deleted nucs
68
Total unknown nucs
464
Length
29824 (98.4%)

Nucleotide mutations

Mutations called relative to the MN908947.3 reference

Substitutions
  • C21T
  • C44T
  • C241T
  • T606C
  • T670G
  • C897A
  • C1288T
  • C1825T
  • C2005T
  • C2790T
  • C3037T
  • G3431T
  • T3565C
  • C3902T
  • G4184A
  • T4214C
  • C4321T
  • G4444A
Deletions
11288-11296, 21633-21641, 21765-21770, 21992-21994, 22194-22196, 23009-23011, 28362-28370, 29734-29759
Insertions
N/A

Amino acid substitutions

Substitutions called relative to the MN908947.3 reference

Substitutions

E

  • E:T9I

M

  • M:D3H
  • M:Q19E
  • M:T30A
  • M:A63T
  • M:A104V

N

  • N:P13L
  • N:R203K
  • N:G204R
  • N:Q229K
  • N:T379I
  • N:S413R

ORF1a

  • ORF1a:I114T
  • ORF1a:S135R
  • ORF1a:A211D
  • ORF1a:T842I
  • ORF1a:V1056L
  • ORF1a:P1213S
  • ORF1a:G1307S
  • ORF1a:L1546I
  • ORF1a:K1973R
  • ORF1a:A1997V
  • ORF1a:T2087I
  • ORF1a:N2526S
  • ORF1a:S2535L
  • ORF1a:A2710T
  • ORF1a:L3027F
  • ORF1a:T3090I
  • ORF1a:T3255I
  • ORF1a:P3395H

ORF1b

  • ORF1b:P314L
  • ORF1b:V839I
  • ORF1b:R1315C
  • ORF1b:I1566V
  • ORF1b:L1701F
  • ORF1b:T2163I

ORF3a

  • ORF3a:S74F
  • ORF3a:T223I

ORF6

  • ORF6:D61L

ORF7b

  • ORF7b:F19L

ORF9b

  • ORF9b:I5T
  • ORF9b:P10S

S

  • S:T19I
  • S:R21T
  • S:T22N
  • S:A27S
  • S:S31P
  • S:S50L
  • S:V127F
  • S:G142D
  • S:F157S
  • S:R158G
  • S:K182R
  • S:R190S
  • S:L212I
  • S:V213G
  • S:L216F
  • S:H245N
  • S:A264D
  • S:I332V
Deletions

N

N:31-33

ORF1a

ORF1a:3675-3677

ORF9b

ORF9b:27-29

S

S:24-26, S:69, S:70, S:144, S:211, S:483
Insertions
N/A

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