PP_00110B9.1

Display Name: Senegal/PP_00110B9.1/2022-09-01
Sene, O.

Submission details

Submission ID
PP894729.1.S
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 S

Completeness S
100.00%
Length S
1686
Total ambiguous nucs S
0
Total deleted nucs S
16
Total frame shifts S
0
Total inserted nucs S
30
Total SNPs S
285
Total unknown nucs S
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 S
PP894729.1
NCBI release date
2025-01-18

Nucleotide mutations

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

Substitutions

S

  • S:C38A
  • S:T39C
  • S:G54A
  • S:A61G
  • S:G67A
  • S:G73A
  • S:T79C
  • S:A92C
  • S:G99A
  • S:G100A
  • S:A109G
  • S:A118G
  • S:T127C
  • S:A130G
  • S:C139T
  • S:C142T
  • S:C160T
  • S:T163C
    • Deletions
    S:1551-1553, S:1564-1572, S:1586-1588, S:1639
    Insertions
    ins_S:1580:ACAGTCACCAAAACC, ins_S:1531:GTG, ins_S:1535:TG, ins_S:1616:A, ins_S:1546:AA, ins_S:1625:T, ins_S:1506:C, ins_S:1520:CCATT

    Amino acid mutations

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

    Substitutions

    NP

  • NP:M13L
  • NP:R15K
  • NP:S39N
  • NP:S52G
  • NP:F73Y
  • NP:K91R
  • NP:A100T
  • NP:T124A
  • NP:G125N
  • NP:A154S
  • NP:H195K
  • NP:V198I
  • NP:D199E
  • NP:V205I
  • NP:I220V
  • NP:I246V
  • NP:D248E
  • NP:N258K
    • Deletions
    None
    Insertions
    None

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