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.
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Loculus
West Nile Virus
Crimean-Congo Hemorrhagic Fever Virus
Test Dummy Organism
Test organism (without consensus sequences)
Ebola Sudan
Test organism (without alignment)
West Nile Virus
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LOC_000LU9F.1
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Download FASTA
Download metadata TSV
Display Name: Italy/LOC_000LU9F.1/2023-09-15
Monaco,
F.; Valleriani,
F.; Teodori,
L.; Amatori,
G.; Marcacci,
M.; Savini,
G.
Submission details
Submission ID
PP104377.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-03-13 17:50:14 UTC
Date released
2025-03-13 17:58:32 UTC
Data use terms
Data use terms
OPEN
✕
Data Use Terms History
Changed
User
Data Use Terms
2025-03-13 17:50
insdc_ingest_user
OPEN
Close
(history)
Data use terms URL
https://#TODO-MVP/open
Authors
Author affiliations
Istituto Zooprofilattico Sperimentale 'G. Caporale', Viral Foreign Deseases of Animals
Alignment and QC metrics
Completeness
99.13%
Frame shifts
NS2A:122-124(nt:3889-3895)
Length
10920
Total ambiguous nucs
0
Total deleted nucs
30
Total frame shifts
1
Total inserted nucs
17
Total SNPs
2214
Total stop codons
0
Total unknown nucs
0
Sample details
Earliest release date
2024-02-02
Collection subdivision level 1
EmiliaRomagna
Collection country
Italy
Collection date
2023-09-15
Collection date (lower bound)
2023-09-15
Collection date (upper bound)
2023-09-15
Isolate name
TE.25168.1.2
Host
Host name scientific
Culex pipiens
Host taxon id
7175
INSDC
INSDC accession
PP104377.1
NCBI release date
2024-02-02
NCBI update date
2024-02-02
Lineage
Lineage
2
Nucleotide mutations
Mutations called relative to the
NC_009942.1
reference
Substitutions
C
52
T
C
123
T
G
126
A
G
128
A
A
156
T
T
167
G
G
168
A
T
180
A
T
199
C
C
204
T
C
210
T
C
216
A
G
219
A
G
222
C
A
231
T
T
234
C
C
246
T
C
255
T
Show more
Deletions
3885-3888, 6994-6996, 10447-10449, 10457-10462, 10467-10470, 10487-10494, 10904, 10921
Insertions
ins_10426:AAT, ins_7006:TTGAGA, ins_3895:AATG, ins_10501:T, ins_10483:GTT
Amino acid mutations
Mutations called relative to the
NC_009942.1
reference
Substitutions
2K
2K:
M
15
L
NS1
NS1:
S
9
G
NS1:
Y
34
F
NS1:
Y
35
H
NS1:
K
44
R
NS1:
K
51
A
NS1:
V
71
I
NS1:
E
94
N
NS1:
S
99
A
NS1:
T
105
A
NS1:
I
113
M
NS1:
L
123
I
NS1:
V
135
I
NS1:
K
141
E
NS1:
Q
146
A
NS1:
L
153
M
NS1:
K
170
R
NS1:
V
171
I
NS1:
S
174
T
Show more
NS2A
NS2A:
M
34
I
NS2A:
L
38
M
NS2A:
I
39
L
NS2A:
F
46
L
NS2A:
S
68
A
NS2A:
M
90
L
NS2A:
N
104
S
NS2A:
H
119
Y
NS2A:
L
126
S
NS2A:
I
129
V
NS2A:
A
137
S
NS2A:
T
147
S
NS2A:
T
150
N
NS2A:
R
167
K
NS2A:
I
183
V
NS2A:
R
188
K
NS2A:
S
192
C
NS2A:
A
193
S
Show more
NS2B
NS2B:
A
41
V
NS2B:
S
61
T
NS2B:
M
88
I
NS2B:
V
103
A
NS2B:
V
120
I
NS3
NS3:
K
11
R
NS3:
Q
92
H
NS3:
F
130
Y
NS3:
D
172
E
NS3:
I
175
A
NS3:
R
203
K
NS3:
R
215
K
NS3:
A
233
S
NS3:
P
249
H
NS3:
N
253
S
NS3:
V
283
I
NS3:
S
302
A
NS3:
S
331
A
NS3:
L
336
M
NS3:
S
347
T
NS3:
T
356
V
NS3:
V
384
I
NS3:
T
436
E
Show more
NS4A
NS4A:
I
6
V
NS4A:
K
11
R
NS4A:
T
64
S
NS4A:
M
65
L
NS4A:
A
85
V
NS4A:
V
86
I
NS4A:
V
89
A
NS4B
NS4B:
S
11
N
NS4B:
F
17
L
NS4B:
Q
19
H
NS4B:
R
20
K
NS4B:
I
21
P
NS4B:
V
23
T
NS4B:
K
24
R
NS4B:
N
26
T
NS4B:
F
27
T
NS4B:
S
28
L
NS4B:
M
29
G
NS4B:
G
30
V
NS4B:
T
116
A
NS4B:
I
168
V
NS4B:
L
180
M
NS4B:
L
183
M
NS4B:
K
193
R
NS4B:
I
202
T
NS5
NS5:
Q
18
H
NS5:
I
33
T
NS5:
K
45
R
NS5:
V
49
I
NS5:
I
78
V
NS5:
R
101
K
NS5:
C
139
A
NS5:
C
140
S
NS5:
I
162
V
NS5:
R
177
K
NS5:
V
181
I
NS5:
K
190
R
NS5:
L
197
T
NS5:
R
224
H
NS5:
V
229
I
NS5:
R
247
K
NS5:
Y
254
F
NS5:
R
287
K
Show more
capsid
capsid:
S
11
N
capsid:
V
24
G
capsid:
S
100
T
capsid:
K
108
T
capsid:
T
109
A
capsid:
I
111
F
capsid:
A
112
T
capsid:
V
113
I
capsid:
M
114
L
capsid:
I
115
L
capsid:
S
120
C
capsid:
V
121
A
env
env:
A
51
T
env:
E
55
D
env:
T
64
S
env:
K
71
R
env:
D
83
E
env:
R
93
K
env:
S
122
T
env:
I
126
T
env:
R
128
W
env:
T
129
I
env:
L
131
Q
env:
V
159
T
env:
L
167
F
env:
A
172
S
env:
N
199
S
env:
T
205
S
env:
T
208
A
env:
T
210
S
Show more
prM
prM:
M
44
L
prM:
D
46
E
prM:
S
57
A
prM:
A
73
S
prM:
M
112
L
prM:
V
156
A
prM:
V
157
I
Deletions
NS2A:121
Insertions
ins_NS4B:31:N
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