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PPD_002H39A.1

Display Name: Spain/PPD_002H39A.1/2019-12-19
G.-L. Lin, S. B. Drysdale, M. D. Snape, D. O'Connor, A. Brown, G. MacIntyre-Cockett, E. Mellado-Gomez, M. de Cesare, D. Bonsall, M. A. Ansari, D. Oner, J. Aerssens, C. Butler, L. Bont, P. Openshaw, F. Martinon-Torres, H. Nair, R. Bowden, T. Golubchik & A. J. Pollard

Submission details

Submission ID
MZ515940.1
Submitting group
Date submitted
2025-07-16 15:13:13 UTC
Date released
2025-07-16 15:25:12 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2025-07-16 15:13insdc_ingest_userOPEN
Data use terms URL

Authors

Author affiliations
Oxford Vaccine Group, Department of Paediatrics, University of Oxford

INSDC

BioProject accession
INSDC accession
NCBI release date
2021-08-18
NCBI update date
2021-08-18

Alignment and QC metrics

Completeness
100.00%
Length
15276
Total ambiguous nucs
0
Total deleted nucs
1
Total frame shifts
0
Total inserted nucs
52
Total SNPs
190
Total unknown nucs
0

Sample details

Earliest release date
2021-08-18
Collection country
Spain
Collection date
2019-12-19
Collection date (lower bound)
2019-12-19
Collection date (upper bound)
2019-12-19
Isolate name
SE01A-0108-V02

Host

Host name - scientific
Homo sapiens
Host taxon ID

Lineage

Lineage
A.D.1

Nucleotide mutations

Mutations called relative to the PP109421.1 reference

Substitutions

  • T45C
  • T46C
  • T65C
  • T66A
  • A67G
  • C90T
  • C183T
  • G198A
  • G240A
  • A489G
  • G551A
  • C622T
  • G664A
  • T697C
  • T832C
  • G1000A
  • C1012T
  • T1048C
    • Deletions
    4592
    Insertions
    ins_15225:GTTTTTGACACTTTTTTTCTCGT, ins_0:ACGCGAAAAAATGCGTACAACAAACTTGC

    Amino acid mutations

    Mutations called relative to the PP109421.1 reference

    Substitutions

    G

  • G:P71L
  • G:H90Y
  • G:L101F
  • G:N103T
  • G:I134K
  • G:L142S
  • G:S144I
  • G:G224V
  • G:S243I
  • G:K262E
  • G:I265L
  • G:S270P
  • G:D284G
  • G:P298S
  • G:Y304H
  • G:T320A

    • L

  • L:N143D
  • L:P171L
  • L:T179S
  • L:R256K
  • L:Y598H
  • L:L1438Q
  • L:I1653V
  • L:K1661N
  • L:N1723S
  • L:E1725G
  • L:G1731D

    • M

  • M:M43I

    • M2-1

  • M2-1:S176P

    • M2-2

  • M2-2:Y26C
  • M2-2:S46N

    • N

  • N:V352A

    • P

  • P:L55P
    • Deletions
    None
    Insertions
    None

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