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_000PYNC.1

Display Name: France/LOC_000PYNC.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
2025-10-14 07:07insdc_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
1
Total inserted nucs S
0
Total deleted nucs S
0
Total ambiguous nucs S
0
Total unknown nucs S
0
Total frame shifts S
0
Completeness S
100.00%

Alignment and QC metrics M

Length M
5413
Total SNPs M
1316
Total inserted nucs M
109
Total deleted nucs M
62
Total ambiguous nucs M
0
Total unknown nucs M
1081
Total frame shifts M
14
Frame shifts M
GPC:86-98(nt:347-386),GPC:207-288(nt:711-956),GPC:308-613(nt:1014-1931),GPC:619-646(nt:1947-2030),GPC:666-713(nt:2088-2231),GPC:1093-1244(nt:3369-3824),GPC:1303-1347(nt:3997-4132),GPC:1365-1385(nt:4183-4247),GPC:1394-1411(nt:4272-4325),GPC:1434-1450(nt:4392-4442),GPC:1466-1485(nt:4486-4547),GPC:1500-1513(nt:4590-4630),GPC:1530-1548(nt:4680-4736),GPC:1663-1685(nt:5077-5147)
Completeness M
79.85%

Submission details

Submission ID
PV976883.1.M/PV976892.1.S
Submitting group
Date submitted
2025-10-14 07:07:07 UTC
Date released
2025-10-14 07:14:59 UTC

Lineage

Segment S Lineage
III

Files

Annotations

Nucleotide mutations

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

Substitutions

M

  • M:G50T
  • M:A51G
  • M:A52T
  • M:G56T
  • M:A57G
  • M:T58A
  • M:T59A
  • M:G60A
  • M:A64G
  • M:T65A
  • M:C66T
  • M:A69G
  • M:A70T
  • M:T71G
  • M:T72A
  • M:C74G
  • M:G76A
  • M:A80G

    • S

  • S:G1661A
    • Deletions
    M:792-809, M:1013, M:2232, M:3996, M:4075-4077, M:4182, M:4485, M:5076, M:5166-5200
    Insertions
    ins_M:197:ATGTCTTCAAAC, ins_M:346:AGAA, ins_M:386:CAGAAACGCTCAGGGCTCAAAACCCAAGTACC, ins_M:710:AT, ins_M:956:C, ins_M:1902:TT, ins_M:1931:AA, ins_M:1946:G, ins_M:2006:A, ins_M:2030:T, ins_M:2087:G, ins_M:3368:AG, ins_M:3824:G, ins_M:4132:A, ins_M:4247:A, ins_M:4271:A, ins_M:4325:CG, ins_M:4391:A, ins_M:4442:ATCAT, ins_M:4547:CAGG, ins_M:4589:A, ins_M:4630:CC, ins_M:4679:C, ins_M:4703:G,...

    Amino acid mutations

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

    Substitutions

    GPC

  • GPC:M1K
  • GPC:H2F
  • GPC:I3M
  • GPC:S4L
  • GPC:M6T
  • GPC:Y7N
  • GPC:A8F
  • GPC:I9F
  • GPC:L10F
  • GPC:L12Q
  • GPC:Q13L
  • GPC:C15W
  • GPC:L17G
  • GPC:H21V
  • GPC:G22P
  • GPC:H24M
  • GPC:N25T
  • GPC:V61N
    • Deletions
    GPC:26-59, GPC:108-111, GPC:184-188, GPC:714, GPC:1302, GPC:1348, GPC:1364, GPC:1465, GPC:1662
    Insertions
    ins_GPC:18:GVASGGRTNTSSTQTTLMSSNTSNSAMSVLESSMGTAK, ins_GPC:131:DVNSFTSPILEAKSSP, ins_GPC:617:HV, ins_GPC:1244:X, ins_GPC:1411:X, ins_GPC:1431:NI, ins_GPC:1486:N, ins_GPC:1514:Q, ins_GPC:1528:E, ins_GPC:1581:F

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