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_0019RT3.1

USA/AVA1506845/2015-09-16
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
2015-09-16
Earliest release date
2018-12-31
Sampling location
USA (Montgomery Co. TX)
Isolate name
AVA1506845

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
MF175865.1
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
68
Total inserted nucs
6
Total ambiguous nucs
13
Total frame shifts
3
Frame shifts
prM:98-167(nt:757-966),NS3:570-619(nt:6319-6468),NS4B:248-255(nt:7657-7680)
Length
11035 (99.9%)
Amino Acid Mutations from founder clade
  • 2K:L15M
  • NS2A:R188K
  • NS2B:A103V
  • NS3:T249P
  • NS3:I356T
  • NS4A:V85A
  • NS4B:I240M
  • NS5:Y27H
  • NS5:K177R
  • env:K93R
  • env:T126I
  • env:I159A
Variant
False

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions
  • C340T
  • C435T
  • A459G
  • A630G
  • C963T
  • T1368C
  • T1442C
  • C1465T
  • T1647C
  • G1662A
  • C1750T
  • G2031A
  • A3429G
  • C3501T
  • C3504T
  • T3528C
  • C3720T
  • C3912T
Deletions
N/A
Insertions
ins_756:C, ins_762:A, ins_6318:C, ins_7656:T, ins_10462:A, ins_10469:A

Amino acid substitutions

Substitutions called relative to the NC_009942.1 reference

Substitutions

NS2A

  • NS2A:R188K

NS4B

  • NS4B:I240M

NS5

  • NS5:Y27H

env

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

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