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_000PKY5.1

Display Name: France/LOC_000PKY5.1/2024
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
2025-08-29 09:06insdc_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
421
Total inserted nucs L
140
Total deleted nucs L
96
Total ambiguous nucs L
0
Total unknown nucs L
2017
Total frame shifts L
41
Frame shifts L
RdRp:563-634(nt:1763-1976),RdRp:642-670(nt:2000-2086),RdRp:675-691(nt:2099-2149),RdRp:699-708(nt:2169-2200),RdRp:717-1033(nt:2225-3175),RdRp:1047-1636(nt:3215-4983),RdRp:1643-1652(nt:5003-5031),RdRp:1666-1683(nt:5070-5125),RdRp:1695-1723(nt:5159-5245),RdRp:1746-1754(nt:5311-5336),RdRp:1761-1768(nt:5357-5380),RdRp:1771-1780(nt:5386-5416),RdRp:1789-1793(nt:5440-5455),...
Completeness L
73.11%

Submission details

Submission ID
PV976882.1.L
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:A1375G
  • L:G1408A
  • L:T1420C
  • L:C1435T
  • L:C1495T
  • L:T1590C
  • L:C1591T
  • L:A1641G
  • L:T1710C
  • L:T1732C
  • L:T1802G
  • L:T1877C
  • L:A1879G
  • L:C1927T
  • L:G1990A
  • L:C1999T
  • L:G2000T
  • L:C2006T
    • Deletions
    L:1977, L:2069, L:2087, L:2168, L:2186, L:2201, L:2224, L:2234, L:3176, L:3197-3205, L:4396, L:4822, L:4823, L:5086, L:5099, L:5100, L:5126, L:5127, L:5158, L:5198-5200, L:5237, L:5246, L:5309, L:5310, L:5337, L:5381, L:5384, L:5385, L:5417, L:5480, L:5498, L:5499, L:5588, L:5635, L:6047, L:6197, L:6212, L:6506, L:6586, L:6620, L:6670, L:6682, L:6692, L:6725, L:6959-6962, L:6986,...
    Insertions
    ins_L:1762:G, ins_L:1999:T, ins_L:2032:A, ins_L:2098:G, ins_L:2116:A, ins_L:2140:AA, ins_L:2146:G, ins_L:2149:T, ins_L:3214:ATCGC, ins_L:4983:C, ins_L:5002:G, ins_L:5008:T, ins_L:5031:C, ins_L:5069:AT, ins_L:5257:TTG, ins_L:5356:A, ins_L:5439:T, ins_L:5455:AA, ins_L:5462:T, ins_L:5467:T, ins_L:5544:G, ins_L:5558:AGTC, ins_L:6248:TC, ins_L:6256:GT, ins_L:6304:T, ins_L:6310:ACCC,...

    Amino acid mutations

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

    Substitutions

    RdRp

  • RdRp:I505T
  • RdRp:K522R
  • RdRp:L545P
  • RdRp:A1038I
  • RdRp:V1039A
  • RdRp:L1045R
  • RdRp:P1660T
  • RdRp:L1665H
  • RdRp:T1692I
  • RdRp:F1795K
  • RdRp:P1796L
  • RdRp:T1842A
  • RdRp:S2042V
  • RdRp:V2043S
  • RdRp:S2044L
  • RdRp:L2065P
  • RdRp:V2071M
  • RdRp:V2074I
    • Deletions
    RdRp:671, RdRp:698, RdRp:709, RdRp:1034, RdRp:1041-1043, RdRp:1684, RdRp:1724, RdRp:1745, RdRp:1769, RdRp:1770, RdRp:1781, RdRp:1838, RdRp:1839, RdRp:2041, RdRp:2046, RdRp:2144, RdRp:2182, RdRp:2206, RdRp:2217, RdRp:2295-2297, RdRp:2304, RdRp:2345, RdRp:2351, RdRp:2361, RdRp:2474, RdRp:2478, RdRp:2531, RdRp:2681, RdRp:2735, RdRp:2891, RdRp:2892, RdRp:2906, RdRp:2919, RdRp:2934,...
    Insertions
    ins_RdRp:691:XX, ins_RdRp:1047:A, ins_RdRp:1652:X, ins_RdRp:1728:L, ins_RdRp:1824:DLPSK, ins_RdRp:2084:QY, ins_RdRp:2089:MPKX, ins_RdRp:2343:LAT, ins_RdRp:2365:P, ins_RdRp:2774:M, ins_RdRp:2786:SE, ins_RdRp:2838:P, ins_RdRp:3539:M, ins_RdRp:3583:XX

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