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_000LKAN.1

USA/OR59L-9-11-Cqp/2018-09-11
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
2018-09-11
Earliest release date
2024-11-07
Sampling location
USA (Connecticut)
Isolate name
OR59L-9-11-Cqp

Data use terms

Data use terms
OPEN
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
OZ201659.1
Submitting group
Date submitted
2026-08-18 16:49:45 UTC
Date released
2026-08-18 17:09:13 UTC

Lineage

Lineage
1A

Files

Annotations

Alignment and QC

Total SNPs
78
Total ambiguous nucs
3
Total unknown nucs
1531
Length
10917 (85.1%)
Amino Acid Mutations from founder clade
  • NS1:K102R
  • NS2A:R188K
  • NS2B:A103V
  • NS3:T249P
  • NS3:I356T
  • NS5:K177R
  • NS5:K280R
  • NS5:S423N
  • NS5:D438G
  • env:K93R
  • env:T126I
  • env:I159A
  • prM:F155L
Variant
True

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions
  • C204T
  • C340T
  • A630G
  • T928C
  • T1442C
  • C1465T
  • C1572T
  • G1662A
  • C1750T
  • T1762C
  • C1869T
  • T1945C
  • C2109T
  • A2193G
  • C2304T
  • C2334T
  • C2454T
  • C2466T
Deletions
N/A
Insertions
N/A

Amino acid substitutions

Substitutions called relative to the NC_009942.1 reference

Substitutions

NS1

  • NS1:K102R

NS2A

  • NS2A:R188K

NS5

  • NS5:K280R
  • NS5:S423N
  • NS5:D438G

env

  • env:V159A
  • env:L167F

prM

  • prM:F155L
Deletions
N/A
Insertions
N/A

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