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_000P9N1.1

Display Name: Ghana/LOC_000P9N1.1/2020-02-13
S. O. Addo, R. E. Bentil, B. O. A. Baako, K. N. Yartey, J. Ansah-Owusu, C. N. L. Tawiah-Mensah, B. Agbodzi, S. Kumordjie, C. Yeboah, V. Asoala, J. C. Dunford, J. A. Larbi, P. K. Baidoo, M. D. Wilson, J. W. II Diclaro & S. K. Dadzie

Submission details

Submission ID
OQ441062.1.L/OQ441060.1.S
Submitting group
Date submitted
2025-07-08 17:25:07 UTC
Date released
2025-07-08 17:29:01 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2025-07-08 17:25insdc_ingest_userOPEN
Data use terms URL

Authors

Author affiliations
University of Ghana Noguchi Memorial Institute for Medical Research, NAMRU-3

Alignment and QC metrics L

Completeness L
99.93%
Length L
12134
Total ambiguous nucs L
0
Total deleted nucs L
0
Total frame shifts L
0
Total inserted nucs L
35
Total SNPs L
309
Total unknown nucs L
0

Alignment and QC metrics S

Completeness S
97.73%
Length S
1635
Total ambiguous nucs S
0
Total deleted nucs S
0
Total frame shifts S
0
Total inserted nucs S
1
Total SNPs S
128
Total unknown nucs S
0

Sample details

Earliest release date
2023-06-18
Collection subdivision level 1
Navrongo
Collection country
Ghana
Collection date
2020-02-13
Collection date (lower bound)
2020-02-13
Collection date (upper bound)
2020-02-13
Isolate name
TK-12/Ghana/2020

Host

Host name scientific
Hyalomma rufipes
Host taxon id

INSDC

INSDC accession L
INSDC accession S
NCBI release date
2023-06-18

Nucleotide mutations

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

Substitutions

L

  • L:T10C
  • L:T65C
  • L:T70C
  • L:G93A
  • L:T254A
  • L:G277A
  • L:A298G
  • L:G304A
  • L:C313T
  • L:G315A
  • L:G330A
  • L:T340C
  • L:T550G
  • L:G553A
  • L:C568T
  • L:G619A
  • L:C673T
  • L:T707C

    • S

  • S:C38T
  • S:G47C
  • S:A50T
  • S:G54A
  • S:G67A
  • S:G99A
  • S:G100A
  • S:C178A
  • S:G189A
  • S:T199C
  • S:G202A
  • S:G229A
  • S:C235T
  • S:A247G
  • S:G271A
  • S:C295T
  • S:A317G
  • S:A322G
    • Deletions
    None
    Insertions
    ins_S:1581:C, ins_L:12108:GTGGGGG, ins_L:12098:TCATTTCAGCTTCATTGTCATCGTTATT

    Amino acid mutations

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

    Substitutions

    NP

  • NP:R15K
  • NP:R45K
  • NP:I88V
  • NP:K91R
  • NP:T124A
  • NP:G125N
  • NP:L179Q
  • NP:H195R
  • NP:I246V
  • NP:S301G
  • NP:K428R
  • NP:V436I

    • RdRp

  • RdRp:S6N
  • RdRp:Y60N
  • RdRp:R80K
  • RdRp:S85N
  • RdRp:N448S
  • RdRp:S498N
  • RdRp:I505T
  • RdRp:V584M
  • RdRp:T767A
  • RdRp:G778D
  • RdRp:S789A
  • RdRp:K809R
  • RdRp:G812E
  • RdRp:T876S
  • RdRp:A1038T
  • RdRp:G1047E
  • RdRp:H1161N
  • RdRp:T1182I
    • Deletions
    None
    Insertions
    None

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