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_00002HX.1

USA/HNY1999/unknown
X. Y. Jia, T. Briese, I. Jordan, A. Rambaut, H. C. Chi, J. S. Mackenzie, R. A. Hall, J. Scherret & W. I. Lipkin

University of California, Irvine, Emerging Diseases Laboratory, Dept. Microbiology & Molecular Genetics and Neurology

Sample details

Earliest release date
1999-12-16
Sampling location
USA (New York)
Isolate name
HNY1999

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2026-06-23 10:51insdc_ingest_userOPEN
Data use terms URL

INSDC

NCBI release date
1999-12-16
NCBI update date
1999-12-16
INSDC accession

Submission details

Submission ID
AF202541.1
Submitting group
Date submitted
2026-06-23 10:51:43 UTC
Date released
2026-06-23 10:52:45 UTC

Lineage

Lineage
1A

Files

Annotations

Alignment and QC

Total SNPs
21
Length
10945 (99.2%)
Amino Acid Mutations from founder clade
  • 2K:L15M
  • NS1:D7N
  • NS1:S9T
  • NS1:L78P
  • NS1:S174G
  • NS2B:A103V
  • NS3:T249P
  • NS3:I356T
  • NS4A:V85A
  • NS5:K177R
  • env:K93R
  • env:T126I
  • env:I159V
Variant
False

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • T615C
  • A630G
  • C1050T
  • A1200G
  • T1206C
  • C1465T
  • G2488A
  • G2495C
  • T2702C
  • G2988A
  • A2989G
  • C4107T
  • G4665C
  • C4677T
  • G5280A
  • T6405C
  • C6735A
  • A7671G
Deletions
N/A
Insertions
N/A

Amino acid substitutions

Substitutions called relative to the NC_009942.1 reference

Substitutions

NS1

  • NS1:D7N
  • NS1:S9T
  • NS1:L78P
  • NS1:S174G

env

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

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