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_000KXY1.1

Display Name: USA/LOC_000KXY1.1/2004-07-09
N. Grubaugh, N. Matteson, K. Gangavarupa, D. Neitzel & K. Andersen

Sample details

Collection date
2004-07-09
Collection date (lower bound)
2004-07-09
Collection date (upper bound)
2004-07-09
Earliest release date
2023-08-02
Collection country
USA
Collection subdivision level 1
Ramsey, Minnesota

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2025-10-18 12:46insdc_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
41
Total inserted nucs
0
Total deleted nucs
0
Total ambiguous nucs
0
Total unknown nucs
165
Total frame shifts
0
Completeness
91.91%
Total stop codons
0

Submission details

Submission ID
OQ721619.1
Submitting group
Date submitted
2025-10-18 12:46:08 UTC
Date released
2025-10-18 12:59:43 UTC

Lineage

Lineage
1A

Files

Annotations

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • G504A
  • A630G
  • C660T
  • C882T
  • A1299G
  • A1320G
  • T1442C
  • C1465T
  • T1661A
  • C1707T
  • T1822C
  • C2466T
  • C4107T
  • A4146G
  • C4755T
  • C4803T
  • G5280A
  • G5295A
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the NC_009942.1 reference

    Substitutions

    NS4A

  • NS4A:A85T

    • NS5

  • NS5:K314R

    • env

  • env:V159A
  • env:L167F
  • env:V232E
    • Deletions
    None
    Insertions
    None

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