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_000PAHA.1

USA/LOC_000PAHA.1/2007-10-02
N. Grubaugh, S. Grewal, N. L. Matteson, K. Gangavarapu, N. Gurfield & K. Andersen

The Scripps Research Institute, Department of Immunology and Microbiology

Sample details

Collection date
2007-10-02
Earliest release date
2019-01-20
Sampling location
USA (El_Cajon,California)
Isolate name
WNV/bird/El_Cajon_CA_USA/2007-10-02/W002

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2026-03-18 12:55insdc_ingest_userOPEN
Data use terms URL

INSDC

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

Host

Host

Submission details

Submission ID
MH507609.1
Submitting group
Date submitted
2026-03-18 12:54:31 UTC
Date released
2026-03-18 13:10:32 UTC

Lineage

Lineage
1A

Files

Annotations

Alignment and QC

Total SNPs
46
Length
10302 (93.4%)
Amino Acid Mutations from founder clade
  • 2K:L15M
  • NS2B:A103F
  • NS3:T249P
  • NS3:I356T
  • NS4A:V85A
  • NS4B:C120F
  • NS5:K177R
  • env:K93R
  • env:T126I
  • env:I159A
  • env:V431I
Variant
False

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • T339C
  • A630G
  • C660T
  • C1317T
  • T1442C
  • C1465T
  • T1821C
  • G2257A
  • C2466T
  • C3570T
  • C4107T
  • A4146G
  • T4212C
  • C4272T
  • C4323T
  • G4452A
  • G4525T
  • T4542C
Deletions
N/A
Insertions
N/A

Amino acid mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

NS2B

  • NS2B:V103F

NS4B

  • NS4B:C120F

env

  • env:V159A
  • env:L167F
  • env:V431I
Deletions
N/A
Insertions
N/A

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