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GS_005DQZE.1
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Display Name: USA/GS_005DQZE.1/2025-02-20
USDA Swine Surveillance,
A.; Lin,
K.; Dohrn,
C.
Submission details
Submission ID
PV353954.1.seg4/PV353955.1.seg6
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-04-03 08:07:10 UTC
Date released
2025-04-03 11:33:09 UTC
Authors
Author affiliations
Iowa State University Veterinary Diagnostic Lab, Bioinformatics
Clade
Clade HA
unassigned
Clade NA
unassigned
Alignment states and QC metrics seg4
Completeness seg4
97.93%
Length seg4
1701
Total ambiguous nucs seg4
0
Total deleted nucs seg4
0
Total frame shifts seg4
0
Total inserted nucs seg4
0
Total SNPs seg4
205
Total unknown nucs seg4
0
Alignment states and QC metrics seg6
Completeness seg6
98.19%
Length seg6
1410
Total ambiguous nucs seg6
0
Total deleted nucs seg6
0
Total frame shifts seg6
0
Total inserted nucs seg6
0
Total SNPs seg6
139
Total unknown nucs seg6
0
Sample details
Collection country
USA
Collection subdivision level 1
Montana
Collection date
2025-02-20
Isolate name
A02858398
Host
Host name scientific
Sus scrofa
Host taxon id
9823
INSDC
INSDC accession seg4
PV353954.1
INSDC accession seg6
PV353955.1
NCBI release date
2025-03-20
INSDC seg4
Subtype seg4
H3
INSDC seg6
Subtype seg6
N2
Nucleotide mutations
Mutations called relative to the
NC_007373.1
,
NC_007372.1
,
NC_007371.1
,
CY163680.1
,
NC_007369.1
,
CY114383.1
,
NC_007367.1
&
NC_007370.1
references
Substitutions
seg4
seg4:
G
38
T
seg4:
A
43
G
seg4:
T
47
C
seg4:
C
54
A
seg4:
T
55
C
seg4:
G
56
A
seg4:
C
62
A
seg4:
C
66
A
seg4:
C
77
T
seg4:
G
79
A
seg4:
C
94
T
seg4:
T
110
G
seg4:
G
113
A
seg4:
C
126
T
seg4:
A
138
T
seg4:
G
155
T
seg4:
A
156
G
seg4:
T
173
G
Show more
seg6
seg6:
G
30
A
seg6:
C
36
T
seg6:
T
39
C
seg6:
G
40
A
seg6:
T
42
C
seg6:
C
50
T
seg6:
T
55
G
seg6:
T
62
C
seg6:
T
70
C
seg6:
C
72
T
seg6:
T
88
C
seg6:
G
90
A
seg6:
A
91
G
seg6:
C
118
A
seg6:
A
120
G
seg6:
T
121
C
seg6:
A
126
T
seg6:
T
128
G
Show more
Deletions
None
Insertions
None
Amino acid mutations
Mutations called relative to the
NC_007373.1
,
NC_007372.1
,
NC_007371.1
,
CY163680.1
,
NC_007369.1
,
CY114383.1
,
NC_007367.1
&
NC_007370.1
references
Substitutions
HA1
HA1:
Q
1
K
HA1:
G
5
E
HA1:
T
10
M
HA1:
P
21
S
HA1:
I
25
L
HA1:
N
31
D
HA1:
S
45
N
HA1:
G
50
K
HA1:
D
53
N
HA1:
E
62
K
HA1:
Q
75
H
HA1:
D
77
E
HA1:
G
78
E
HA1:
N
81
D
HA1:
K
83
E
HA1:
K
92
T
HA1:
D
101
Y
HA1:
A
106
T
Show more
HA2
HA2:
Q
27
R
HA2:
I
32
T
HA2:
N
49
T
HA2:
L
55
V
HA2:
G
57
K
HA2:
K
82
R
HA2:
L
91
I
HA2:
R
121
K
HA2:
K
124
R
HA2:
K
139
Q
HA2:
A
147
T
HA2:
Q
172
H
HA2:
E
177
Q
HA2:
S
180
L
HA2:
I
193
T
HA2:
A
201
V
HA2:
F
205
V
NA
NA:
V
13
I
NA:
T
16
I
NA:
S
18
A
NA:
I
20
T
NA:
F
23
L
NA:
I
30
V
NA:
Q
39
K
NA:
Y
40
H
NA:
E
41
D
NA:
F
42
C
NA:
N
43
G
NA:
P
45
S
NA:
L
52
Q
NA:
T
56
A
NA:
I
62
T
NA:
E
64
K
NA:
K
80
I
NA:
A
82
V
Show more
SigPep
SigPep:
L
7
F
SigPep:
Y
9
C
SigPep:
L
13
T
SigPep:
F
15
L
Deletions
None
Insertions
None
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