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_0019S3H.1

USA/AVA1506113/2015-09-22
C. Aroh, M. D'Anton, C. Liang, P. Raj, B. Wakeland, N. Yan & E. Wakeland

UT Southwestern Medical Center, Department of Immunology

Sample details

Collection date
2015-09-22
Earliest release date
2018-12-31
Sampling location
USA (Collin Co. TX)
Isolate name
AVA1506113

Data use terms

Data use terms
OPEN
Data use terms URL

INSDC

NCBI release date
2018-12-31
NCBI update date
2018-12-31
INSDC accession

Host

Host

Submission details

Submission ID
MF175875.1
Submitting group
Date submitted
2026-10-05 17:01:15 UTC
Date released
2026-10-05 17:13:14 UTC

Lineage

Lineage
1A

Files

Annotations

Alignment and QC

Total SNPs
80
Total inserted nucs
5
Total ambiguous nucs
16
Total frame shifts
3
Frame shifts
prM:98-167(nt:757-966),env:329-501(nt:1951-2469),NS3:570-619(nt:6319-6468)
Length
11034 (99.9%)
Amino Acid Mutations from founder clade
  • 2K:L15M
  • NS1:K110N
  • NS2A:L95F
  • NS2B:A103V
  • NS3:T249P
  • NS3:S334T
  • NS3:I356T
  • NS4A:V85A
  • NS4B:S14I
  • NS5:K177R
  • env:K93R
  • env:T126I
  • env:I159A
Variant
True

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions
  • T348C
  • T609C
  • A630G
  • C783T
  • C804T
  • C807T
  • T825C
  • C990T
  • A1401G
  • T1442C
  • C1465T
  • T1923C
  • T1951C
  • T1965C
  • A2005T
  • A2097C
  • C2371T
  • C2466T
Deletions
N/A
Insertions
ins_756:C, ins_762:A, ins_1950:CT, ins_6318:C

Amino acid substitutions

Substitutions called relative to the NC_009942.1 reference

Substitutions

NS1

  • NS1:K110N

NS2A

  • NS2A:L95F

NS3

  • NS3:S334T

NS4B

  • NS4B:S14I

env

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

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