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LOC_000T8F9.1
Download
Download FASTA
Download metadata TSV
Italy/LOC_000T8F9.1/2023-09-12
C. della Ventura,
M. Carrera,
F. Defilippo,
D. Lelli,
C. Nogarol,
M. L. Mandola,
A. Lai,
A. Bergna,
F. Moroni,
A. Moreno &
G. Zehender
University of Milan, Department of Biomedical and Clinical Sciences
Sample details
Collection date
2023-09-12
Earliest release date
2026-02-24
Sampling location
Italy (Lombardy)
Isolate name
281201/1_Italy_Lombardy_2023-09-12
Data use terms
Data use terms
OPEN
✕
Data use terms history
Changed
User
Data use terms
2026-05-22 14:38
insdc_ingest_user
OPEN
Close
(history)
Data use terms URL
https://#TODO-MVP/open
INSDC
NCBI release date
2026-02-24
NCBI update date
2026-02-24
INSDC accession
PX632942.1
Host
Host
crows (Corvus)
Submission details
Submission ID
PX632942.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2026-05-22 14:37:53 UTC
Date released
2026-05-22 14:58:44 UTC
Lineage
Lineage
2
Files
Annotations
LOC_000T8F9.1.embl
Alignment and QC
Total SNPs
1929
Total inserted nucs
7
Total deleted nucs
479
Total ambiguous nucs
11
Total unknown nucs
1158
Total frame shifts
1
Frame shifts
capsid:114-123(nt:434-465)
Length
10279 (86.9%)
Amino Acid Mutations from founder clade
NS1:
Y
35
H
NS1:
K
44
R
NS1:
I
46
V
NS1:
I
171
V
NS2A:
S
192
C
NS2B:
T
57
A
NS3:
H
249
P
NS3:
N
280
K
NS3:
F
282
Y
NS3:
I
283
K
NS3:
A
287
T
NS3:
H
288
N
NS3:
I
295
S
NS3:
A
296
E
NS3:
A
297
S
NS3:
R
298
I
NS3:
G
299
E
NS3:
A
310
G
Show more
Variant
True
Nucleotide mutations
Mutations called relative to the
NC_009942.1
reference
Substitutions
C
244
T
A
436
T
A
439
C
C
444
G
C
453
T
A
454
T
C
456
T
T
458
C
A
459
T
A
465
T
T
468
G
T
477
G
A
486
G
G
489
C
G
492
A
G
504
A
A
507
C
T
513
A
Show more
Deletions
246-356, 361-433, 10397-10402, 10408, 10409, 10416-10449, 10457-10462, 10467-10470, 10487-10494, 10742-10782, 10791-10984
Insertions
ins_6954:GTC, ins_10483:GTT, ins_10501:T
Amino acid substitutions
Substitutions called relative to the
NC_009942.1
reference
Substitutions
2K
2K:
M
15
L
NS1
NS1:
S
9
G
NS1:
Y
35
H
NS1:
K
44
R
NS1:
I
46
V
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:
S
174
T
NS1:
L
192
M
Show more
NS2A
NS2A:
M
34
I
NS2A:
L
38
M
NS2A:
I
39
L
NS2A:
S
68
A
NS2A:
M
90
L
NS2A:
N
104
S
NS2A:
V
112
A
NS2A:
H
119
Y
NS2A:
R
122
K
NS2A:
Q
123
N
NS2A:
I
124
V
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
Show more
NS2B
NS2B:
A
41
V
NS2B:
T
57
A
NS2B:
S
61
T
NS3
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:
N
253
S
NS3:
N
280
K
NS3:
F
282
Y
NS3:
V
283
K
NS3:
A
287
T
NS3:
H
288
N
NS3:
I
295
S
NS3:
A
296
E
NS3:
A
297
S
NS3:
R
298
I
NS3:
G
299
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:
A
100
V
NS4B:
T
116
A
NS4B:
I
168
V
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
env
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
env:
V
232
T
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
NS4B
NS4B:10-12
capsid
capsid:62-113
Insertions
NS4B
ins_NS4B:13:LGLV
Nucleotide sequence
Aligned nucleotide sequence
Aligned amino acid sequences
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