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_000LZPF.1

Display Name: USA/LOC_000LZPF.1/2021
Mariskanish, C. A.; Hallum, T.; Lee, S. S.; Conte, M. A.; Hang, J.

Submission details

Submission ID
PQ005989.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-03-13 17:50:14 UTC
Date released
2025-03-13 17:58:32 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2025-03-13 17:50insdc_ingest_userOPEN
Data use terms URL
https://#TODO-MVP/open

Authors

Author affiliations
Walter Reed Army Institute of Research, Viral Diseases Program

Alignment and QC metrics

Completeness
99.09%
Length
10929
Total ambiguous nucs
0
Total deleted nucs
0
Total frame shifts
0
Total inserted nucs
0
Total SNPs
127
Total stop codons
0
Total unknown nucs
0

Sample details

Earliest release date
2024-12-23
Collection subdivision level 1
San Gabriel Valley, California
Collection country
USA
Collection date
2021
Collection date (lower bound)
2021-01-01
Collection date (upper bound)
2021-12-31

Host

Host name scientific
Corvus
Host taxon id
30420

INSDC

INSDC accession
PQ005989.1
NCBI release date
2024-12-23
NCBI update date
2024-12-23

Lineage

Lineage
1A

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • C204T
  • C340T
  • A407G
  • C435T
  • C531T
  • A564G
  • A630G
  • C663T
  • C807T
  • T861A
  • C882T
  • C933T
  • T940C
  • C966T
  • C969T
  • C1065T
  • C1089T
  • C1170T
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the NC_009942.1 reference

    Substitutions

    NS1

  • NS1:P138L
  • NS1:I236V

    • NS2A

  • NS2A:R122H
  • NS2A:R188K

    • NS2B

  • NS2B:V120I

    • NS3

  • NS3:S467L

    • NS4A

  • NS4A:A85V

    • NS5

  • NS5:V49I
  • NS5:L640I
  • NS5:H684Y

    • capsid

  • capsid:K104R

    • env

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

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