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_000M9FL.1

USA/28708/2022-01-01
C. A. Mariskanish, T. Hallum, S. S. Lee, M. A. Conte & J. Hang

Walter Reed Army Institute of Research, Viral Diseases Program

Sample details

Collection date
2022
Earliest release date
2024-12-23
Sampling location
USA (San Gabriel Valley, California)
Isolate name
28708

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2026-03-20 13:10insdc_ingest_userOPEN
Data use terms URL

INSDC

NCBI release date
2024-12-23
NCBI update date
2024-12-23
INSDC accession

Host

Host

Submission details

Submission ID
PQ005945.1
Submitting group
Date submitted
2026-03-20 13:09:48 UTC
Date released
2026-03-20 13:53:50 UTC

Lineage

Lineage
1A

Files

Annotations

Alignment and QC

Total SNPs
127
Length
10926 (99.1%)
Amino Acid Mutations from founder clade
  • 2K:L15M
  • NS1:I236V
  • NS2A:F46L
  • NS2A:R122H
  • NS2A:R188K
  • NS2B:A103V
  • NS2B:V120I
  • NS3:T249P
  • NS3:I356T
  • NS4B:M29L
  • NS4B:A114S
  • NS5:V49I
  • NS5:K177R
  • NS5:D635E
  • NS5:G806R
  • capsid:K104R
  • env:K93R
  • env:T126I
  • env:I159A
Variant
True

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • C204T
  • C340T
  • A407G
  • C435T
  • A564G
  • A630G
  • C663T
  • T861A
  • C882T
  • C933T
  • T940C
  • C966T
  • C969T
  • C1065T
  • C1089T
  • C1170T
  • A1203G
  • T1442C
Deletions
N/A
Insertions
N/A

Amino acid substitutions

Substitutions called relative to the NC_009942.1 reference

Substitutions

NS1

  • NS1:I236V

NS2A

  • NS2A:F46L
  • NS2A:R122H
  • NS2A:R188K

NS2B

  • NS2B:V120I

NS4A

  • NS4A:A85V

NS4B

  • NS4B:M29L
  • NS4B:A114S

NS5

  • NS5:V49I
  • NS5:D635E
  • NS5:G806R

capsid

  • capsid:K104R

env

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

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