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_000M21M.1

Display Name: USA/LOC_000M21M.1/2004-08-12
N. Grubaugh, Y. Fang, N. L. Matteson, K. Gangavarapu, L. Coffey, C. Barker & K. Andersen

Sample details

Collection date
2004-08-12
Collection date (lower bound)
2004-08-12
Collection date (upper bound)
2004-08-12
Earliest release date
2019-01-20
Collection country
USA
Collection subdivision level 1
Shafter,California

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2025-10-13 08:43insdc_ingest_userOPEN
Data use terms URL

Authors

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

INSDC

NCBI release date
2019-01-20
NCBI update date
2019-01-20
INSDC accession
Bioproject accession

Host

Host taxon id
Host name scientific
Culex quinquefasciatus

Alignment and QC metrics

Length
10302
Total SNPs
54
Total inserted nucs
0
Total deleted nucs
0
Total ambiguous nucs
0
Total unknown nucs
0
Total frame shifts
0
Completeness
93.41%
Total stop codons
0

Submission details

Submission ID
MH507898.1
Submitting group
Date submitted
2025-10-13 08:43:05 UTC
Date released
2025-10-13 08:58:38 UTC

Lineage

Lineage
1A

Files

Annotations

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • T238C
  • A630G
  • C660T
  • C1228T
  • A1320G
  • T1442C
  • C1465T
  • C1974T
  • C2273T
  • C2466T
  • C2529T
  • T2922C
  • T3399C
  • A3630T
  • C4107T
  • A4146G
  • T4422C
  • G4735A
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the NC_009942.1 reference

    Substitutions

    NS3

  • NS3:V42I

    • NS4A

  • NS4A:A85T

    • NS4B

  • NS4B:A99S
  • NS4B:I245T
  • NS4B:E249G

    • NS5

  • NS5:H42Y
  • NS5:K314R

    • env

  • env:P88S
  • env:V159A
  • env:L167F
  • env:T436I
    • Deletions
    None
    Insertions
    None

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