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_001EM2E.1

Display Name: France/LOC_001EM2E.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
ECH

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
10857
Total SNPs L
669
Total inserted nucs L
82
Total deleted nucs L
92
Total ambiguous nucs L
0
Total unknown nucs L
309
Total frame shifts L
26
Frame shifts L
RdRp:497-590(nt:1563-1846),RdRp:596-617(nt:1862-1926),RdRp:648-657(nt:2016-2046),RdRp:734-797(nt:2274-2467),RdRp:817-1073(nt:2525-3294),RdRp:1098-1107(nt:3368-3397),RdRp:1115-1121(nt:3417-3439),RdRp:1130-1139(nt:3464-3492),RdRp:1162-1168(nt:3558-3580),RdRp:1173-1178(nt:3593-3608),RdRp:1189-1204(nt:3640-3688),RdRp:1216-1269(nt:3722-3883),RdRp:1285-1311(nt:3927-4009),...
Completeness L
87.20%
Stop codons L
RdRp:1206,RdRp:3578,RdRp:3693
Total stop codons L
3

Submission details

Submission ID
PV976881.1.L
Submitting group
Date submitted
2026-02-09 21:05:33 UTC
Date released
2026-02-09 21:13:54 UTC

Files

Annotations

Nucleotide mutations

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

Substitutions

L

  • G1321C
  • A1375G
  • G1408A
  • T1420C
  • C1435T
  • G1448C
  • C1495T
  • T1590C
  • T1732C
  • C1743T
  • G1756C
  • G1797A
  • G1817C
  • T1877C
  • A1879G
  • G1980C
  • C2006T
  • G2041A
    • Deletions
    1562, 1604, 1927, 2015, 2273, 2288, 2468, 2524, 2894, 3295, 3364-3367, 3416, 3440, 3441, 3463, 3476, 3493, 3557, 3812-3814, 3884-3890, 3926, 4010, 4011, 4043, 4061, 4117, 4130-4133, 5045, 7277, 7438, 8696, 8920, 8954, 8955, 8981, 9422, 9443, 10328, 10640, 10641, 10675, 10676, 10769-10772, 10787, 10850-10852, 10874, 10895-10900, 11171-11173, 11268-11272, 11306-11308, 11336, 11703-11706,...
    Insertions
    ins_1657:C, ins_1846:C, ins_1861:A, ins_2046:G, ins_3397:G, ins_3580:G, ins_3592:TA, ins_3608:C, ins_3639:CAGA, ins_3670:G, ins_3688:C, ins_3721:T, ins_4159:GA, ins_4180:C, ins_4201:G, ins_4250:C, ins_4954:AG, ins_8650:A, ins_8896:GA, ins_10690:AG, ins_10702:TC, ins_10718:G, ins_10960:G, ins_10998:GC, ins_11026:T, ins_11041:TGA, ins_11100:GA, ins_11114:G, ins_11217:G, ins_11233:A,...

    Amino acid mutations

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

    Substitutions

    RdRp

  • RdRp:Q415H
  • RdRp:D458H
  • RdRp:R635P
  • RdRp:K673E
  • RdRp:D693N
  • RdRp:S695Q
  • RdRp:R704K
  • RdRp:S724P
  • RdRp:E804K
  • RdRp:K809R
  • RdRp:G812E
  • RdRp:Q815E
  • RdRp:C1079R
  • RdRp:R1081T
  • RdRp:V1087M
  • RdRp:C1091Y
  • RdRp:E1092G
  • RdRp:N1093E
    • Deletions
    RdRp:496, RdRp:647, RdRp:733, RdRp:798, RdRp:1095-1097, RdRp:1114, RdRp:1122, RdRp:1161, RdRp:1270-1272, RdRp:1284, RdRp:1312-1314, RdRp:1323, RdRp:1352, RdRp:1353, RdRp:1657, RdRp:2874, RdRp:3116, RdRp:3123, RdRp:3534, RdRp:3571, RdRp:3593, RdRp:3600, RdRp:3629, RdRp:3897, RdRp:3898
    Insertions
    ins_RdRp:1178:Q, ins_RdRp:1187:YR, ins_RdRp:1391:A, ins_RdRp:3655:E*

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