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_000LX1U.1

USA/RT825/2015-05-12
C. Hepp, J. Hager-Cocking, M. Valentine, J. Townsend, J. Will, K. Smith, S. Young & D. Engelthaler

Northern Arizona University, School of Informatics, Computing, and Cyber Systems

Sample details

Collection date
2015-05-12
Earliest release date
2017-11-18
Sampling location
USA (AZ)
Isolate name
RT825

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2026-06-22 15:07insdc_ingest_userOPEN
Data use terms URL

INSDC

NCBI release date
2017-11-18
NCBI update date
2017-11-18
INSDC accession

Host

Host

Submission details

Submission ID
MG004540.1
Submitting group
Date submitted
2026-06-22 15:07:45 UTC
Date released
2026-06-22 15:23:43 UTC

Lineage

Lineage
1A

Files

Annotations

Alignment and QC

Total SNPs
73
Total ambiguous nucs
7
Length
10803 (97.9%)
Amino Acid Mutations from founder clade
  • 2K:L15M
  • NS2B:A103V
  • NS3:T249P
  • NS3:I356T
  • NS4A:V85T
  • NS5:K177R
  • NS5:S262N
  • NS5:K314R
  • NS5:F653L
  • NS5:A860T
  • env:K93R
  • env:T126I
  • env:I159A
  • prM:V140A
Variant
True

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • C660T
  • T884C
  • C1056T
  • T1071C
  • C1122T
  • G1185A
  • A1320G
  • T1442C
  • C1465T
  • C1974T
  • T2241G
  • T2356C
  • C2388T
  • C2466T
  • A2511G
  • C2889T
  • G2934A
  • A3126G
Deletions
N/A
Insertions
N/A

Amino acid substitutions

Substitutions called relative to the NC_009942.1 reference

Substitutions

NS4A

  • NS4A:A85T

NS5

  • NS5:S262N
  • NS5:K314R
  • NS5:F653L
  • NS5:A860T

env

  • env:V159A
  • env:L167F

prM

  • prM:V140A
Deletions
N/A
Insertions
N/A

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