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_000L1YV.1

Display Name: USA/LOC_000L1YV.1/2018-08-23
Grubaugh, N.; Matteson, N.; Gangavarupa, K.; Westrich, A.; Blanco, C.; Mansour, R.; Andersen, K.

Submission details

Submission ID
OQ721795.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-12-29 12:39:12 UTC
Date released
2024-12-29 12:46:26 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2024-12-29 12:39insdc_ingest_userOPEN
Data use terms URL
https://#TODO-MVP/open

Authors

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

INSDC

Bioproject accession
PRJNA472981
INSDC accession
OQ721795.1
NCBI release date
2023-08-02
NCBI update date
2023-08-02

Alignment states and QC metrics

Completeness
66.33%
Length
10302
Total ambiguous nucs
0
Total deleted nucs
0
Total frame shifts
0
Total inserted nucs
0
Total SNPs
42
Total stop codons
0
Total unknown nucs
2987

Sample details

Earliest release date
2023-08-02
Collection subdivision level 1
Cook, Illinois
Collection country
USA
Collection date
2018-08-23
Collection date (lower bound)
2018-08-23
Collection date (upper bound)
2018-08-23

Host

Host name scientific
Culex
Host taxon id
7174

Lineage

Lineage
1A

Nucleotide mutations

Substitutions

  • A630G
  • T1442C
  • C1465T
  • G1662A
  • C1750T
  • C1900T
  • C2034A
  • C2466T
  • T2704C
  • C3912T
  • C3969T
  • G4066A
  • G4088A
  • C4107T
  • A4134T
  • A4146G
  • C4272T
  • T4542C
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Substitutions

    NS2A

  • NS2A:V181I
  • NS2A:R188K

    • NS3

  • NS3:V601A

    • NS4B

  • NS4B:P87H
  • NS4B:W242C

    • NS5

  • NS5:E550G

    • env

  • env:V159A
  • env:L167F
  • env:L312F
    • Deletions
    None
    Insertions
    None