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Status
PPD_003ZK29.1
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Download FASTA
Download metadata TSV
Display Name: Italy/PPD_003ZK29.1/2024-09-01
Viscardi,
M.; Cozzolino,
L.; Cardillo,
L.; De Martinis,
C.; Rinaldi,
A.; Paradiso,
R.; Borriello,
G.; Fusco,
G.
Submission details
Submission ID
PQ435199.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-11-19 16:26:34 UTC
Date released
2024-11-19 16:50:02 UTC
Data use terms
Data use terms
OPEN
✕
Data Use Terms History
Changed
User
Data Use Terms
2024-11-19 16:27
insdc_ingest_user
OPEN
Close
(history)
Data use terms URL
https://pathoplexus.org/about/terms-of-use/open-data
Authors
Author affiliations
Istituto Zooprofilattico Sperimentale del Mezzogiorno, Hanimal Health
Alignment states and QC metrics
Completeness
99.23%
Length
10965
Total ambiguous nucs
0
Total deleted nucs
17
Total frame shifts
0
Total inserted nucs
38
Total SNPs
2220
Total stop codons
0
Total unknown nucs
0
Sample details
Collection country
Italy
Collection date
2024-09-01
Isolate name
S1_IZSM
INSDC
INSDC accession
PQ435199.1
NCBI release date
2024-10-30
NCBI update date
2024-10-30
Lineage
Lineage
2
Nucleotide mutations
Substitutions
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
G
G
219
A
G
222
C
A
231
T
T
234
C
C
246
T
C
255
T
G
261
A
Show more
Deletions
6994-6996, 10467-10470, 10487-10494, 10904, 10921
Insertions
ins_10417:GTTGTAGTGTTTA, ins_10408:TGTATTGAGT, ins_10483:GAT, ins_7006:TTGAGA, ins_10452:AGA, ins_10501:T, ins_10461:AG
Amino acid mutations
Substitutions
2K
2K:
M
15
L
NS1
NS1:
S
9
G
NS1:
Y
34
F
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
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:
S
61
T
NS2B:
M
88
I
NS2B:
V
103
A
NS2B:
V
119
I
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:
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
NS3:
E
439
D
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:
S
14
G
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
48
A
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
capsid
capsid:
S
11
N
capsid:
V
24
G
capsid:
S
100
T
capsid:
K
108
T
capsid:
T
109
A
capsid:
I
111
S
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:
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
None
Insertions
ins_NS4B:31:N
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