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GS_005113L.1
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Display Name: USA/GS_005113L.1/2025-02-26
USDA Swine Surveillance,
A.; Lin,
K.; Dohrn,
C.
Submission details
Submission ID
PV354490.1.seg4/PV354491.1.seg6
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-04-03 08:01:46 UTC
Date released
2025-04-03 10:23:07 UTC
Authors
Author affiliations
Iowa State University Veterinary Diagnostic Lab, Bioinformatics
Clade
Clade HA
1
Clade NA
B.2
Alignment states and QC metrics seg4
Completeness seg4
97.09%
Length seg4
1695
Total ambiguous nucs seg4
0
Total deleted nucs seg4
6
Total frame shifts seg4
0
Total inserted nucs seg4
0
Total SNPs seg4
271
Total unknown nucs seg4
0
Alignment states and QC metrics seg6
Completeness seg6
98.39%
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
47
Total unknown nucs seg6
0
Sample details
Collection country
USA
Collection subdivision level 1
Missouri
Collection date
2025-02-26
Isolate name
A02858418
Host
Host name scientific
Sus scrofa
Host taxon id
9823
INSDC
INSDC accession seg4
PV354490.1
INSDC accession seg6
PV354491.1
NCBI release date
2025-03-20
INSDC seg4
Subtype seg4
H1
INSDC seg6
Subtype seg6
N1
Nucleotide mutations
Mutations called relative to the
NC_026438.1
,
NC_026435.1
,
NC_026437.1
,
CY121680.1
,
NC_026436.1
,
MW626056.1
,
NC_026431.1
&
NC_026432.1
references
Substitutions
seg4
seg4:
C
33
T
seg4:
A
35
G
seg4:
G
36
T
seg4:
A
38
G
seg4:
T
41
C
seg4:
C
42
T
seg4:
T
48
C
seg4:
T
54
C
seg4:
T
78
A
seg4:
A
110
T
seg4:
C
113
T
seg4:
T
116
A
seg4:
A
119
T
seg4:
C
122
T
seg4:
A
128
G
seg4:
C
129
T
seg4:
A
134
G
seg4:
C
155
T
Show more
seg6
seg6:
T
41
C
seg6:
C
64
T
seg6:
A
80
G
seg6:
G
108
A
seg6:
G
130
A
seg6:
G
163
A
seg6:
T
170
C
seg6:
T
205
A
seg6:
C
221
T
seg6:
T
224
C
seg6:
C
235
T
seg6:
G
246
A
seg6:
G
255
C
seg6:
A
263
G
seg6:
C
265
T
seg6:
T
290
C
seg6:
A
296
G
seg6:
T
311
C
Show more
Deletions
seg4:450-455
Insertions
None
Amino acid mutations
Mutations called relative to the
NC_026438.1
,
NC_026435.1
,
NC_026437.1
,
CY121680.1
,
NC_026436.1
,
MW626056.1
,
NC_026431.1
&
NC_026432.1
references
Substitutions
HA1
HA1:
L
3
I
HA1:
R
45
G
HA1:
V
47
K
HA1:
H
51
Y
HA1:
I
61
L
HA1:
L
70
I
HA1:
S
71
L
HA1:
A
73
V
HA1:
S
84
N
HA1:
D
94
S
HA1:
I
96
T
HA1:
D
97
N
HA1:
R
113
K
HA1:
I
116
M
HA1:
K
119
I
HA1:
T
120
E
HA1:
S
128
Y
HA1:
N
129
K
Show more
HA2
HA2:
E
29
D
HA2:
L
38
Q
HA2:
N
43
R
HA2:
E
47
G
HA2:
H
72
N
HA2:
K
75
R
HA2:
K
82
R
HA2:
I
91
V
HA2:
Y
110
F
HA2:
S
124
N
HA2:
K
127
R
HA2:
P
160
L
HA2:
A
166
S
HA2:
E
179
D
HA2:
I
183
V
HA2:
V
200
L
HA2:
I
206
L
NA
NA:
T
19
M
NA:
V
34
I
NA:
G
41
E
NA:
S
52
N
NA:
F
66
Y
NA:
A
76
V
NA:
V
80
M
NA:
V
83
L
NA:
A
86
V
NA:
I
149
V
NA:
S
200
N
NA:
K
222
N
NA:
V
234
I
NA:
T
381
I
NA:
E
432
K
NA:
G
454
S
SigPep
SigPep:
V
6
L
SigPep:
Y
10
H
SigPep:
F
12
L
Deletions
HA1:126, HA1:127
Insertions
None
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