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Influenza A/H1N1pdm
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GS_005KA0E.1
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Display Name: USA/GS_005KA0E.1/2025-04-09
USDA Swine Surveillance,
A.; Lin,
K.; Dohrn,
C.
Submission details
Submission ID
PV579109.1.seg4/PV579110.1.seg6
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-05-20 09:58:16 UTC
Date released
2025-05-20 13:35:00 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
124
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
151
Total unknown nucs seg6
0
Sample details
Collection country
USA
Collection subdivision level 1
Iowa
Collection date
2025-04-09
Isolate name
A/swine/Iowa/A02858519/2025
Host
Host name scientific
Sus scrofa
Host taxon id
9823
INSDC
INSDC accession seg4
PV579109.1
INSDC accession seg6
PV579110.1
NCBI release date
2025-04-29
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:
A
39
G
seg4:
T
42
C
seg4:
C
77
T
seg4:
A
80
T
seg4:
G
91
A
seg4:
C
94
T
seg4:
G
104
T
seg4:
G
113
A
seg4:
A
125
G
seg4:
C
131
T
seg4:
G
137
A
seg4:
G
155
A
seg4:
T
182
C
seg4:
C
202
T
seg4:
A
206
T
seg4:
G
214
A
seg4:
G
222
A
seg4:
T
308
C
Show more
seg6
seg6:
T
15
C
seg6:
G
30
A
seg6:
C
50
T
seg6:
T
55
G
seg6:
T
70
C
seg6:
C
72
T
seg6:
A
79
G
seg6:
T
88
C
seg6:
A
91
G
seg6:
A
120
G
seg6:
T
121
A
seg6:
T
123
A
seg6:
A
126
T
seg6:
T
128
G
seg6:
G
153
A
seg6:
G
156
A
seg6:
C
157
T
seg6:
G
159
T
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:
S
9
N
HA1:
T
10
M
HA1:
S
46
F
HA1:
G
50
E
HA1:
D
53
N
HA1:
K
82
N
HA1:
V
88
I
HA1:
K
92
G
HA1:
Y
94
H
HA1:
P
103
S
HA1:
N
121
Y
HA1:
D
122
N
HA1:
N
133
D
HA1:
T
135
S
HA1:
N
144
I
HA1:
N
145
K
HA1:
H
156
K
HA1:
K
158
D
Show more
HA2
HA2:
I
32
R
HA2:
A
43
T
HA2:
N
46
D
HA2:
R
121
K
HA2:
D
160
N
HA2:
G
181
E
HA2:
Q
211
L
HA2:
N
214
S
HA2:
R
216
K
NA
NA:
T
16
I
NA:
S
18
A
NA:
F
23
L
NA:
I
26
V
NA:
I
30
V
NA:
Y
40
K
NA:
E
41
D
NA:
F
42
C
NA:
M
51
I
NA:
L
52
F
NA:
E
54
K
NA:
I
57
V
NA:
R
60
K
NA:
I
62
K
NA:
I
73
V
NA:
L
81
P
NA:
Y
84
F
NA:
T
95
A
Show more
SigPep
SigPep:
S
8
G
SigPep:
Y
9
H
Deletions
None
Insertions
None
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