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_000M1T3.1

USA/LOC_000M1T3.1/2013-11-07
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
2013-11-07
Earliest release date
2019-01-20
Sampling location
USA (San_Diego,California)
Isolate name
WNV/bird/San_Diego_CA_USA/2013-11-07/W060

Data use terms

Data use terms
OPEN
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
MH507655.1
Submitting group
Date submitted
2026-07-01 18:03:48 UTC
Date released
2026-07-01 18:19:42 UTC

Lineage

Lineage
1A

Files

Annotations

Alignment and QC

Total SNPs
78
Length
10302 (93.4%)
Amino Acid Mutations from founder clade
  • 2K:L15M
  • NS1:S9N
  • NS2A:H119Y
  • NS2A:I142M
  • NS2B:A103V
  • NS3:T249P
  • NS3:I356T
  • NS4A:V85T
  • NS4B:V51I
  • NS4B:F86L
  • NS5:G129E
  • NS5:K177R
  • NS5:K314R
  • env:K93R
  • env:T126I
  • env:I159A
  • prM:Y78F
Variant
True

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions
  • A270G
  • A630G
  • A654G
  • C660T
  • A698T
  • C882T
  • A1044G
  • C1047T
  • A1320G
  • T1442C
  • C1465T
  • C1473T
  • C1599T
  • T1762C
  • C1926T
  • C1974T
  • C2061T
  • C2466T
Deletions
N/A
Insertions
N/A

Amino acid substitutions

Substitutions called relative to the NC_009942.1 reference

Substitutions

NS1

  • NS1:S9N

NS2A

  • NS2A:H119Y
  • NS2A:I142M

NS4A

  • NS4A:A85T

NS4B

  • NS4B:V51I
  • NS4B:F86L

NS5

  • NS5:G129E
  • NS5:K314R

env

  • env:V159A
  • env:L167F

prM

  • prM:Y78F
Deletions
N/A
Insertions
N/A

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