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_000LMEC.1

USA/NH54L-8-21-Cxp/2019-08-21
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
2019-08-21
Earliest release date
2024-11-07
Sampling location
USA (Connecticut)
Isolate name
NH54L-8-21-Cxp

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2026-06-05 15:31insdc_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
OZ201742.1
Submitting group
Date submitted
2026-06-05 15:31:35 UTC
Date released
2026-06-05 15:50:39 UTC

Lineage

Lineage
1A

Files

Annotations

Alignment and QC

Total SNPs
94
Total ambiguous nucs
5
Length
10917 (98.9%)
Amino Acid Mutations from founder clade
  • 2K:L15M
  • NS2A:T52I
  • NS2A:L95F
  • NS2A:H119Y
  • NS2B:A103V
  • NS3:T249P
  • NS3:S334T
  • NS3:I356T
  • NS4A:V85A
  • NS4B:S14I
  • NS5:K177R
  • NS5:R422K
  • env:K93R
  • env:T126I
  • env:I159A
  • env:T330S
Variant
True

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • C55T
  • A630G
  • C693T
  • C762T
  • C849T
  • T1000C
  • T1368C
  • A1401G
  • T1442C
  • C1465T
  • C1893T
  • A1954T
  • T1965C
  • C2043T
  • A2097C
  • C2371T
  • C2466T
  • C2593T
Deletions
N/A
Insertions
N/A

Amino acid substitutions

Substitutions called relative to the NC_009942.1 reference

Substitutions

NS2A

  • NS2A:T52I
  • NS2A:L95F
  • NS2A:H119Y

NS3

  • NS3:S334T

NS4B

  • NS4B:S14I

NS5

  • NS5:R422K

env

  • env:V159A
  • env:L167F
  • env:T330S
Deletions
N/A
Insertions
N/A

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