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_000PLAF.1

Display Name: Guinea/LOC_000PLAF.1/2024-12-11
E. V. Naidenova, Y. M. Krasnov, K. S. Zakharov, M. Y. Kartashov, A. V. Shipovalov, A. B. Ibrahim, E. A. Basov, A. P. Smolina, N. P. Guseva, T. A. Polunina, N. V. Kotova, S. D. Katyshev, S. Boumbaly & M. S. Traore

Sample details

Collection date
2024-12-11
Collection date (lower bound)
2024-12-11
Collection date (upper bound)
2024-12-11
Earliest release date
2025-08-09
Collection country
Guinea
Isolate name
599

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2025-08-29 09:06insdc_ingest_userOPEN
Data use terms URL

Authors

Author affiliations
Russian Antiplague Research Institute 'Microbe', Microbiology

INSDC

NCBI release date
2025-08-09
INSDC accession L
INSDC accession M
INSDC accession S

Host

Host taxon id
Host name scientific
Rhipicephalus decoloratus

Alignment and QC metrics L

Length L
11970
Total SNPs L
429
Total inserted nucs L
3
Total deleted nucs L
0
Total ambiguous nucs L
0
Total unknown nucs L
1092
Total frame shifts L
0
Completeness L
89.82%

Alignment and QC metrics S

Length S
1658
Total SNPs S
182
Total inserted nucs S
6
Total deleted nucs S
0
Total ambiguous nucs S
0
Total unknown nucs S
116
Total frame shifts S
0
Completeness S
91.87%

Alignment and QC metrics M

Length M
3897
Total SNPs M
477
Total inserted nucs M
2
Total deleted nucs M
8
Total ambiguous nucs M
0
Total unknown nucs M
1275
Total frame shifts M
2
Frame shifts M
GPC:177-182(nt:620-638),GPC:235-240(nt:793-812)
Completeness M
48.98%

Submission details

Submission ID
PV987603.1.L/PV987595.1.M/PV987587.1.S
Submitting group
Date submitted
2025-08-29 09:06:25 UTC
Date released
2025-08-29 09:11:43 UTC

Files

Annotations

Nucleotide mutations

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

Substitutions

L

  • L:G93A
  • L:A113G
  • L:C193T
  • L:C205T
  • L:G217A
  • L:C223T
  • L:T253C
  • L:T254A
  • L:G301A
  • L:C313T
  • L:T340C
  • L:C343T
  • L:A388G
  • L:C421T
  • L:T517C
  • L:C541T
  • L:G553A
  • L:A571G

    • M

  • M:C579A
  • M:C580G
  • M:A588C
  • M:C593T
  • M:G597A
  • M:A598C
  • M:G599A
  • M:T603A
  • M:C607A
  • M:A608G
  • M:A622C
  • M:C625A
  • M:A626G
  • M:G627T
  • M:C629A
  • M:C631T
  • M:C632A
  • M:A633G

    • S

  • S:G20T
  • S:G54A
  • S:G67A
  • S:C82T
  • S:G134A
  • S:G136A
  • S:C142T
  • S:C154T
  • S:T155C
  • S:C166T
  • S:G169A
  • S:T175C
  • S:C178A
  • S:T182C
  • S:G189A
  • S:G190A
  • S:C208T
  • S:C235T
    • Deletions
    M:582-587, M:639, M:813
    Insertions
    ins_L:6457:NAN, ins_M:619:A, ins_M:792:A, ins_S:1539:NTCAC, ins_S:1580:C

    Amino acid mutations

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

    Substitutions

    GPC

  • GPC:T162P
  • GPC:E169T
  • GPC:S171T
  • GPC:A172E
  • GPC:A190T
  • GPC:G192A
  • GPC:D197Q
  • GPC:S198C
  • GPC:H199P
  • GPC:A201T
  • GPC:T202S
  • GPC:E203R
  • GPC:H204Q
  • GPC:E206M
  • GPC:S207P
  • GPC:L208S
  • GPC:S211P
  • GPC:G215N

    • NP

  • NP:V27I
  • NP:Y34H
  • NP:R45K
  • NP:S109N
  • NP:D116E
  • NP:T124S
  • NP:G125N
  • NP:H195R
  • NP:D199E
  • NP:I246V
  • NP:R270K
  • NP:S301G
  • NP:V436I
  • NP:T439K

    • RdRp

  • RdRp:S6N
  • RdRp:I13V
  • RdRp:Y60N
  • RdRp:N206Y
  • RdRp:S498N
  • RdRp:I505T
  • RdRp:C648S
  • RdRp:K673R
  • RdRp:R764K
  • RdRp:T767A
  • RdRp:R770K
  • RdRp:P774L
  • RdRp:G778D
  • RdRp:N779S
  • RdRp:S782D
  • RdRp:I783V
  • RdRp:K809R
  • RdRp:G812E
    • Deletions
    GPC:163-166, GPC:183, GPC:241
    Insertions
    ins_RdRp:2127:X

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