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_00D9A1R.1

USA/LOC_00D9A1R.1/2026-09-06
A. P. Rothstein, G. Muir, A. Simas, A. Sum, B. Girinathan, P. Leeson & D. Gratalo

Perimeter, Bioinformatics

Sample details

Collection date
2026-09-06
Earliest release date
2026-09-22
Sampling location
USA (New York)
Isolate name
SARS-CoV-2/human/USA/JFK-GKISBBBJ97421/2026

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
QB045822.1
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.2.1.1

Alignment and QC

Total SNPs
122
Total inserted nucs
12
Total deleted nucs
59
Total unknown nucs
5331
Length
29778 (81.9%)

Nucleotide mutations

Mutations called relative to the MN908947.3 reference

Substitutions
  • C241T
  • T670G
  • C897A
  • G2468A
  • C2790T
  • C3037T
  • T3565C
  • G4184A
  • T4214C
  • C4321T
  • C4901A
  • C5239T
  • A6183G
  • A7842G
  • C7869T
  • C8293T
  • T8350C
  • G8393A
Deletions
11288-11296, 21633-21641, 22194-22196, 23009-23011, 28362-28370, 29734-29759
Insertions
ins_21608:TCATGCCGCTGT

Amino acid substitutions

Substitutions called relative to the MN908947.3 reference

Substitutions

E

  • E:T9I

M

  • M:A63T
  • M:A104V

N

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

ORF1a

  • ORF1a:S135R
  • ORF1a:A211D
  • ORF1a:A735T
  • ORF1a:T842I
  • ORF1a:G1307S
  • ORF1a:L1546I
  • ORF1a:K1973R
  • ORF1a:N2526S
  • ORF1a:S2535L
  • ORF1a:A2710T
  • ORF1a:L3027F
  • ORF1a:T3255I
  • ORF1a:P3395H
  • ORF1a:V3593F
  • ORF1a:T4175I

ORF1b

  • ORF1b:T794I
  • ORF1b:R1315C
  • ORF1b:I1566V
  • ORF1b:T2163I

ORF3a

  • ORF3a:T223I

ORF9b

  • ORF9b:I5T
  • ORF9b:P10S

S

  • S:T19I
  • S:R21T
  • S:T22N
  • S:A27S
  • S:S31P
  • S:L212I
  • S:V213G
  • S:L216F
  • S:H245N
  • S:A264D
  • S:I332V
  • S:G339H
  • S:R346T
  • S:K356T
  • S:S371F
  • S:S373P
  • S:S375F
  • S:T376A
Deletions

N

N:31-33

ORF1a

ORF1a:3675-3677

ORF9b

ORF9b:27-29

S

S:24-26, S:211, S:483
Insertions

S

ins_S:16:MPLF

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