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_000LRNR.1

USA/LOC_000LRNR.1/2017-07-19
N. M. Feriancek, M. I. Breban, E. Bourgikos, A. Bransfield, P. M. Armstrong, C. B. Vogels & N. D. Grubaugh

Yale School of Public Health, New Haven, CT

Sample details

Collection date
2017-07-19
Earliest release date
2024-11-07
Sampling location
USA (Connecticut)
Isolate name
ST64L-7-19-Cxp

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2026-03-02 18:04insdc_ingest_userOPEN
Data use terms URL

INSDC

NCBI release date
2024-11-07
NCBI update date
2024-11-08
INSDC accession
Bioproject accession
Biosample accession

Host

Host

Submission details

Submission ID
OZ201916.1
Submitting group
Date submitted
2026-03-02 18:03:54 UTC
Date released
2026-03-02 18:21:03 UTC

Lineage

Lineage
1A

Files

Annotations

Alignment and QC

Total SNPs
89
Length
10917 (99%)
Amino Acid Mutations from founder clade
  • 2K:L15M
  • NS1:D326G
  • NS2A:T52I
  • NS2A:L95F
  • NS2B:A103V
  • NS3:T249P
  • NS3:S334T
  • NS3:I356T
  • NS4A:V85A
  • NS4B:S14I
  • NS5:K177R
  • capsid:M21V
  • env:K93R
  • env:T126I
  • env:I159A
Variant
True

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • A157G
  • A630G
  • C687T
  • A939G
  • A1401G
  • T1442C
  • C1465T
  • T1656C
  • A1920G
  • T1965C
  • A2097C
  • C2371T
  • C2466T
  • T2475C
  • T2607C
  • T2772C
  • T3069C
  • T3138C
Deletions
N/A
Insertions
N/A

Amino acid mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

NS1

  • NS1:D326G

NS2A

  • NS2A:T52I
  • NS2A:L95F

NS3

  • NS3:S334T

NS4B

  • NS4B:S14I

capsid

  • capsid:M21V

env

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

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