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_001H3RC.1

Display Name: France/LOC_001H3RC.1/2024
M. Gasparine

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
590

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 L

Host

Host taxon id
Host name scientific
Ixodoidea

Alignment and QC metrics L

Length L
10913
Total SNPs L
527
Total inserted nucs L
130
Total deleted nucs L
86
Total ambiguous nucs L
0
Total unknown nucs L
2017
Total frame shifts L
32
Frame shifts L
RdRp:563-634(nt:1763-1976),RdRp:642-690(nt:2000-2146),RdRp:699-708(nt:2169-2200),RdRp:717-1033(nt:2225-3175),RdRp:1048-1636(nt:3216-4983),RdRp:1645-1652(nt:5009-5031),RdRp:1666-1683(nt:5070-5125),RdRp:1695-1723(nt:5159-5245),RdRp:1746-1754(nt:5311-5336),RdRp:1761-1780(nt:5357-5416),RdRp:1789-1837(nt:5440-5587),RdRp:1854-2040(nt:5636-6196),RdRp:2047-2058(nt:6213-6249),...
Completeness L
73.11%
Total stop codons L
0

Submission details

Submission ID
PV976882.1.L
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 reference

Substitutions

L

  • A1375G
  • G1408A
  • T1420C
  • C1435T
  • C1495T
  • T1590C
  • C1591T
  • A1641G
  • T1710C
  • T1732C
  • T1802G
  • T1877C
  • A1879G
  • C1927T
  • G1990A
  • C1999T
  • G2000T
  • C2006T
    • Deletions
    1977, 2069, 2168, 2186, 2201, 2224, 2234, 3176, 3212-3215, 4396, 4822, 4823, 5086, 5099, 5100, 5126, 5127, 5158, 5198-5200, 5237, 5246, 5309, 5310, 5337, 5390-5392, 5417, 5480, 5498, 5499, 5588, 5635, 6047, 6197, 6212, 6506, 6586, 6620, 6670, 6682, 6725, 6959-6962, 6987, 6988, 7037, 7038, 7076, 7110, 7111, 7157, 7158, 7397, 7496, 7508, 7509, 7667, 8117, 8279, 8695, 8747-8751, 8831,...
    Insertions
    ins_1762:G, ins_1999:T, ins_2032:A, ins_2116:A, ins_2146:TGGA, ins_4983:C, ins_5008:CT, ins_5031:C, ins_5069:AT, ins_5257:TTG, ins_5356:A, ins_5439:T, ins_5458:AGCT, ins_5549:TTACC, ins_6249:CACT, ins_6304:TGCAG, ins_6320:G, ins_6345:GCCTAAG, ins_6364:T, ins_6391:AC, ins_6482:CAC, ins_6526:C, ins_6553:T, ins_6714:ATG, ins_6771:C, ins_7170:GCC, ins_7216:A, ins_7266:G, ins_8173:A,...

    Amino acid mutations

    Mutations called relative to the NC_005301.3 reference

    Substitutions

    RdRp

  • RdRp:I505T
  • RdRp:K522R
  • RdRp:L545P
  • RdRp:I1035K
  • RdRp:K1037I
  • RdRp:V1039D
  • RdRp:D1040N
  • RdRp:E1041R
  • RdRp:T1042S
  • RdRp:A1043I
  • RdRp:N1044A
  • RdRp:E1643G
  • RdRp:P1660T
  • RdRp:L1665H
  • RdRp:T1692I
  • RdRp:P1725E
  • RdRp:F1726L
  • RdRp:Y1755T
    • Deletions
    RdRp:698, RdRp:709, RdRp:1034, RdRp:1046, RdRp:1047, RdRp:1637, RdRp:1684, RdRp:1724, RdRp:1727, RdRp:1745, RdRp:1781, RdRp:1838, RdRp:2041, RdRp:2046, RdRp:2144, RdRp:2182, RdRp:2217, RdRp:2295-2297, RdRp:2361, RdRp:2364, RdRp:2365, RdRp:2474, RdRp:2478, RdRp:2531, RdRp:2681, RdRp:2735, RdRp:2891, RdRp:2892, RdRp:2919, RdRp:2934, RdRp:3372, RdRp:3453, RdRp:3900
    Insertions
    ins_RdRp:691:GL, ins_RdRp:1643:T, ins_RdRp:2087:HYKAMP, ins_RdRp:2774:M, ins_RdRp:2838:XXP, ins_RdRp:3539:M, ins_RdRp:3583:XX

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