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_000PHCE.1

Display Name: Guinea/LOC_000PHCE.1/2021-04-02
E. V. Naidenova, Y. M. Krasnov, K. S. Zakharov, D. A. Agafonov, A. M. Senichkina, N. P. Guseva, S. D. Katyshev, T. A. Polunina, N. V. Kotova, G. A. Gurkin, M. Y. Kartashov, A. V. Shipovalov, A. S. Kabanov, S. Boumbaly, M. G. Diallo & M. B. Bah

Submission details

Submission ID
PV210236.1.L
Submitting group
Date submitted
2025-07-18 15:35:17 UTC
Date released
2025-07-18 15:40:30 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2025-07-18 15:35insdc_ingest_userOPEN
Data use terms URL

Authors

Author affiliations
Russian Antiplague Research Institute 'Microbe', Microbiology

Alignment and QC metrics L

Completeness L
81.82%
Length L
11044
Total ambiguous nucs L
0
Total deleted nucs L
339
Total frame shifts L
0
Total inserted nucs L
6
Total SNPs L
286
Total unknown nucs L
1470

Sample details

Earliest release date
2025-03-19
Collection subdivision level 1
N'Zerekore
Collection country
Guinea
Collection date
2021-04-02
Collection date (lower bound)
2021-04-02
Collection date (upper bound)
2021-04-02
Isolate name
5438

Host

Host name scientific
Amblyomma variegatum
Host taxon id

INSDC

INSDC accession L
NCBI release date
2025-03-19

Nucleotide mutations

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

Substitutions

L

  • L:G93A
  • L:A113G
  • L:G116A
  • L:G190A
  • L:C193T
  • L:C205T
  • L:G217A
  • L:C223T
  • L:T253C
  • L:T254A
  • L:G301A
  • L:C313T
  • L:G328A
  • L:T340C
  • L:C343T
  • L:C421T
  • L:T550G
  • L:G553A
    • Deletions
    L:2855-2896, L:10775-11071
    Insertions
    ins_L:388:NNG, ins_L:6457:ANA

    Amino acid mutations

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

    Substitutions

    RdRp

  • RdRp:S6N
  • RdRp:I13V
  • RdRp:A14T
  • RdRp:Y60N
  • RdRp:N206Y
  • RdRp:I505T
  • RdRp:C648S
  • RdRp:K673R
  • RdRp:R764K
  • RdRp:T767A
  • RdRp:R770K
  • RdRp:P774L
  • RdRp:G778D
  • RdRp:N779S
  • RdRp:S782D
  • RdRp:I783V
  • RdRp:A1038T
  • RdRp:V1228I
    • Deletions
    RdRp:927-940, RdRp:3568-3666
    Insertions
    ins_RdRp:104:X, ins_RdRp:2127:X

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