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_000KR04.1

Display Name: USA/LOC_000KR04.1/2016-06-30
N. Grubaugh, N. Matteson, K. Gangavarupa, C. Barker, S. Wheeler, Y. Fang, L. Coffey, W. Reisen & K. Andersen

Sample details

Collection date
2016-06-30
Collection date (lower bound)
2016-06-30
Collection date (upper bound)
2016-06-30
Earliest release date
2023-08-02
Collection country
USA
Collection subdivision level 1
Sacramento, California

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2025-09-16 19:40insdc_ingest_userOPEN
Data use terms URL

Authors

Author affiliations
The Scripps Research Institute, Department of Immunology and Microbiology

INSDC

NCBI release date
2023-08-02
NCBI update date
2023-08-02
INSDC accession
Bioproject accession

Alignment and QC metrics

Length
10302
Total SNPs
89
Total inserted nucs
0
Total deleted nucs
0
Total ambiguous nucs
0
Total unknown nucs
50
Total frame shifts
0
Completeness
92.95%
Total stop codons
0

Submission details

Submission ID
OQ721399.1
Submitting group
Date submitted
2025-09-16 19:40:03 UTC
Date released
2025-09-16 19:54:19 UTC

Lineage

Lineage
1A

Files

Annotations

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • T477C
  • C567T
  • T570C
  • A630G
  • C660T
  • T1442C
  • C1465T
  • T1656C
  • G1752A
  • C1953T
  • G2031A
  • C2466T
  • T2550C
  • T2619C
  • T2664C
  • G2793A
  • G3387A
  • T3537A
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the NC_009942.1 reference

    Substitutions

    2K

  • 2K:S19G

    • NS2A

  • NS2A:D4E

    • NS3

  • NS3:I162M
  • NS3:I435M

    • env

  • env:V159A
  • env:L167F
    • Deletions
    None
    Insertions
    None

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