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_001H3SA.1

Display Name: France/LOC_001H3SA.1/2024
M. Gasparine & A. Falchi

Sample details

Collection date
2024
Collection date (lower bound)
2024-01-01
Collection date (upper bound)
2024-12-31
Earliest release date
2025-08-10
Collection country
France
Isolate name
1002

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2026-02-09 21:05insdc_ingest_userOPEN
Data use terms URL

Authors

Author affiliations
University of Corsica, Unite des Virus Emergents

INSDC

NCBI release date
2025-08-10
INSDC accession M
INSDC accession S

Host

Host taxon id
Host name scientific
Ixodoidea

Alignment and QC metrics S

Length S
1672
Total SNPs S
128
Total inserted nucs S
16
Total deleted nucs S
1
Total ambiguous nucs S
0
Total unknown nucs S
0
Total frame shifts S
0
Completeness S
91.75%
Total stop codons S
0

Alignment and QC metrics M

Length M
5413
Total SNPs M
1126
Total inserted nucs M
54
Total deleted nucs M
16
Total ambiguous nucs M
0
Total unknown nucs M
1081
Total frame shifts M
13
Frame shifts M
GPC:233-305(nt:771-989),GPC:324-629(nt:1046-1963),GPC:635-663(nt:1979-2063),GPC:682-729(nt:2120-2263),GPC:1109-1260(nt:3401-3856),GPC:1319-1364(nt:4029-4168),GPC:1381-1402(nt:4215-4282),GPC:1411-1427(nt:4307-4356),GPC:1450-1467(nt:4424-4475),GPC:1482-1502(nt:4518-4580),GPC:1515-1529(nt:4618-4662),GPC:1545-1564(nt:4709-4767),GPC:1677-1701(nt:5103-5179)
Completeness M
79.50%
Total stop codons M
0

Submission details

Submission ID
PV976883.1.M/PV976892.1.S
Submitting group
Date submitted
2026-02-09 21:05:35 UTC
Date released
2026-02-09 21:11:00 UTC

Files

Annotations

Nucleotide mutations

Mutations called relative to the NC_005301.3, OR047158.1 & OL774851.1 references

Substitutions

M

  • C3T
  • A5T
  • G6C
  • C7A
  • G8A
  • C9A
  • C10G
  • G11A
  • C15A
  • C17T
  • C18T
  • C21G
  • G24A
  • G29A
  • C30G
  • G31T
  • G32A
  • G36A

    • S

  • T16A
  • C31G
  • G34A
  • A38G
  • A51G
  • A83G
  • A84G
  • A98T
  • A162C
  • A173G
  • C183T
  • A186G
  • A213G
  • T219C
  • G231A
  • A255G
  • T279C
  • G282A
    • Deletions
    770, 1045, 2264, 4028, 4114-4116, 4214, 4517, 5102, 5213-5217, 5245, 1562
    Insertions
    ins_39:GTT, ins_989:A, ins_1934:TT, ins_1963:AA, ins_1978:G, ins_2038:A, ins_2063:C, ins_2119:G, ins_3400:AG, ins_3856:G, ins_4168:A, ins_4282:C, ins_4306:C, ins_4342:A, ins_4356:C, ins_4423:A, ins_4475:TCATG, ins_4561:TG, ins_4580:GA, ins_4617:G, ins_4662:CC, ins_4708:G, ins_4735:G, ins_4767:A, ins_4858:GAG, ins_5260:CCAACTATTGCACCT, ins_0:TCTCAAAGAAACACGT

    Amino acid mutations

    Mutations called relative to the NC_005301.3, OR047158.1 & OL774851.1 references

    Substitutions

    GPC

  • GPC:L2F
  • GPC:F3L
  • GPC:E6K
  • GPC:H7F
  • GPC:I11T
  • GPC:V14F
  • GPC:I18L
  • GPC:S21G
  • GPC:L25V
  • GPC:D27S
  • GPC:E28G
  • GPC:A29G
  • GPC:S33T
  • GPC:M35S
  • GPC:G38T
  • GPC:A39T
  • GPC:T40L
  • GPC:A41M

    • NP

  • NP:K15R
  • NP:Y20F
  • NP:K45R
  • NP:A124T
  • NP:N125G
  • NP:Q179L
  • NP:R195H
  • NP:V246I
  • NP:G301S
  • NP:R428K
  • NP:I436V
    • Deletions
    GPC:232, GPC:730, GPC:1318, GPC:1380, GPC:1481, GPC:1676
    Insertions
    ins_GPC:633:HV, ins_GPC:1260:X, ins_GPC:1472:LN, ins_GPC:1502:N, ins_GPC:1530:Q, ins_GPC:1564:X, ins_GPC:1597:F

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