PP_001106K.1

Display Name: Senegal/PP_001106K.1/2022-09-01
Sene, O.

Submission details

Submission ID
PP894724.1.M
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-01-22 09:24:35 UTC
Date released
2025-01-22 09:25:07 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2025-01-22 09:24insdc_ingest_userOPEN
Data use terms URL
https://pathoplexus.org/about/terms-of-use/open-data

Authors

Author affiliations
Institut Pasteur, Dakar, Virology

Alignment and QC metrics M

Completeness M
99.89%
Length M
5360
Total ambiguous nucs M
0
Total deleted nucs M
0
Total frame shifts M
0
Total inserted nucs M
0
Total SNPs M
173
Total unknown nucs M
0

Sample details

Earliest release date
2025-01-18
Collection country
Senegal
Collection date
2022-09
Collection date (lower bound)
2022-09-01
Collection date (upper bound)
2022-09-30

Host

Host name scientific
Hyalomma impeltatum
Host taxon id
563069

INSDC

INSDC accession M
PP894724.1
NCBI release date
2025-01-18

Nucleotide mutations

Mutations called relative to the NC_005301.3, NC_005300.2 & NC_005302.1 references

Substitutions

M

  • M:G124A
  • M:T140C
  • M:A214G
  • M:C217T
  • M:G220T
  • M:T259C
  • M:C320T
  • M:C334T
  • M:A339G
  • M:C344T
  • M:G345A
  • M:T360C
  • M:A377G
  • M:T385C
  • M:C404T
  • M:T406C
  • M:C410T
  • M:G414A
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the NC_005301.3, NC_005300.2 & NC_005302.1 references

    Substitutions

    GPC

  • GPC:C11Y
  • GPC:N41S
  • GPC:P42L
  • GPC:S43I
  • GPC:L56P
  • GPC:P81L
  • GPC:T83A
  • GPC:G85R
  • GPC:S90P
  • GPC:V98A
  • GPC:L105S
  • GPC:G108S
  • GPC:P112S
  • GPC:P123L
  • GPC:N131S
  • GPC:G167D
  • GPC:K168R
  • GPC:S171P
    • Deletions
    None
    Insertions
    None

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