Display Name: South_Africa/GS_000X98E.1/2020-03-16
A. C. Langedijk, R. J. Lebbink, L. J. Bont & A. Evers

Submission details

Submission ID
PP376628.1
Date submitted
2025-03-05 12:56:55 UTC
Date released
2025-03-05 13:15:59 UTC

Authors

Author affiliations
UMC Utrecht, Paediatric Infectious Diseases

Alignment states and QC metrics

Completeness
100.00%
Length
15224
Total ambiguous nucs
0
Total deleted nucs
1
Total frame shifts
0
Total inserted nucs
0
Total SNPs
171
Total unknown nucs
0

Sample details

Collection country
South Africa
Collection date
2020-03-16
Isolate name
270103011

Host

Host name scientific
Homo sapiens
Host taxon id

INSDC

INSDC accession
NCBI release date
2024-04-09
NCBI update date
2024-04-09

Clade & Lineage

Lineage
A.D

Nucleotide mutations

Mutations called relative to the NC_006432.1 reference

Substitutions

  • C58T
  • T66A
  • A67G
  • C90T
  • C183T
  • G664A
  • G766A
  • T781C
  • T826C
  • C865T
  • C926T
  • A979T
  • C1012T
  • A1039G
  • G1050A
  • T1359C
  • C1550T
  • G1581A
  • Deletions
    4592
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the NC_006432.1 reference

    Substitutions

    F

  • F:S99N
  • F:S554N
  • G

  • G:P71L
  • G:H90Y
  • G:L101F
  • G:I134K
  • G:T200P
  • G:K204I
  • G:T207I
  • G:P215L
  • G:G224E
  • G:S243I
  • G:N255D
  • G:E257K
  • G:K262E
  • G:I265L
  • G:P274L
  • G:V279I
  • G:D284G
  • G:P298L
  • L

  • L:P171L
  • L:A173V
  • L:R256K
  • L:Y598H
  • L:L1438Q
  • L:N1723S
  • L:E1725G
  • L:G1731D
  • L:I1741T
  • M

  • M:V106I
  • N

  • N:P147L
  • N:V352A
  • NS2

  • NS2:P110S
  • P

  • P:L55P
  • Deletions
    None
    Insertions
    None