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LOC_001EM58.1
Download
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Download metadata TSV
Display Name: France/LOC_001EM58.1/2024
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
590
Data use terms
Data use terms
OPEN
✕
Data use terms history
Changed
User
Data use terms
2026-02-09 21:05
insdc_ingest_user
OPEN
Close
(history)
Data use terms URL
https://#TODO-MVP/open
Authors
Author affiliations
University of Corsica, Unite des Virus Emergents
INSDC
NCBI release date
2025-08-10
INSDC accession M
PV976884.1
INSDC accession S
PV976887.1
Host
Host taxon id
297308
Host name scientific
Ixodoidea
Alignment and QC metrics S
Length S
1673
Total SNPs S
127
Total inserted nucs S
1
Total deleted nucs S
0
Total ambiguous nucs S
0
Total unknown nucs S
0
Total frame shifts S
0
Completeness S
100.00%
Total stop codons S
0
Alignment and QC metrics M
Length M
5206
Total SNPs M
640
Total inserted nucs M
98
Total deleted nucs M
55
Total ambiguous nucs M
0
Total unknown nucs M
3191
Total frame shifts M
7
Frame shifts M
GPC:18-74(nt:144-314),GPC:95-122(nt:374-456),GPC:318-326(nt:1043-1070),GPC:352-524(nt:1146-1664),GPC:543-560(nt:1718-1771),GPC:1084-1148(nt:3340-3535),GPC:1162-1685(nt:3574-5147)
Completeness M
36.75%
Total stop codons M
0
Submission details
Submission ID
PV976884.1.M/PV976887.1.S
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2026-02-09 21:05:33 UTC
Date released
2026-02-09 21:13:54 UTC
Lineage
Segment S Lineage
III
Files
Annotations
LOC_001EM58.1.embl
Nucleotide mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
M
G
50
T
A
51
G
A
52
T
G
53
A
G
56
T
A
57
G
T
58
A
T
59
A
G
60
A
A
64
G
T
65
A
C
66
T
A
69
G
A
70
T
T
71
G
T
72
A
C
74
G
G
76
A
Show more
S
G
20
T
A
50
G
G
54
A
G
67
A
G
99
A
A
124
G
C
166
T
C
178
A
G
189
A
T
199
C
G
202
A
A
209
G
C
235
T
C
241
T
C
244
T
A
247
G
G
271
A
C
295
T
Show more
Deletions
315, 316, 346-373, 1029-1042, 1144, 1145, 1515, 1665, 1716, 1717, 1772, 3536, 3537, 3573, 3674
Insertions
ins_143:GCGGGGTTGCCAGT, ins_456:GCTCCAGGTGCATCCACTCCAAGCAACACCACATCAAACAAACCAGATGTCAACTCATTCACAT, ins_1070:AC, ins_1295:A, ins_3339:G, ins_3383:T, ins_5084:TTGATG, ins_5108:G, ins_5145:GACGAATC, ins_1577:A
Amino acid mutations
Mutations called relative to the
NC_005301.3
,
NC_005300.2
&
NC_005302.1
references
Substitutions
GPC
GPC:
M
1
K
GPC:
H
2
F
GPC:
I
3
M
GPC:
S
4
L
GPC:
M
6
T
GPC:
Y
7
N
GPC:
A
8
F
GPC:
I
9
F
GPC:
L
10
F
GPC:
L
12
Q
GPC:
Q
13
L
GPC:
L
14
Y
GPC:
C
15
G
GPC:
G
16
V
GPC:
L
17
A
GPC:
P
80
I
GPC:
P
81
S
GPC:
I
82
T
Show more
NP
NP:
R
15
K
NP:
R
45
K
NP:
S
52
G
NP:
K
91
R
NP:
T
124
A
NP:
G
125
N
NP:
L
179
Q
NP:
H
195
R
NP:
S
301
G
NP:
K
428
R
NP:
V
436
I
Deletions
GPC:75, GPC:86-94, GPC:313-317, GPC:327, GPC:328, GPC:525, GPC:528, GPC:542, GPC:1149, GPC:1161
Insertions
ins_GPC:131:DVNSFTSPILEAKSSP, ins_GPC:1157:EEWX
L (unaligned)
M (unaligned)
S (unaligned)
L (aligned)
M (aligned)
S (aligned)
Aligned amino acid sequences
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