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GS_00510W0.1
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Display Name: USA/GS_00510W0.1/2025-02-20
USDA Swine Surveillance,
A.; Lin,
K.; Dohrn,
C.
Submission details
Submission ID
PV354462.1.seg4/PV354463.1.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
6B.1A.5a.2a.1
Clade NA
C.5.1.1
Alignment states and QC metrics seg4
Completeness seg4
97.09%
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
111
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
29
Total unknown nucs seg6
0
Sample details
Collection country
USA
Collection subdivision level 1
Iowa
Collection date
2025-02-20
Isolate name
A02858403
Host
Host name scientific
Sus scrofa
Host taxon id
9823
INSDC
INSDC accession seg4
PV354462.1
INSDC accession seg6
PV354463.1
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:
T
41
G
seg4:
C
42
A
seg4:
A
47
G
seg4:
T
56
C
seg4:
G
57
A
seg4:
A
119
G
seg4:
T
161
C
seg4:
C
164
T
seg4:
G
188
A
seg4:
A
231
C
seg4:
C
248
T
seg4:
C
255
T
seg4:
C
293
A
seg4:
T
294
G
seg4:
C
318
T
seg4:
G
322
A
seg4:
G
360
A
seg4:
G
416
A
Show more
seg6
seg6:
C
47
T
seg6:
A
51
G
seg6:
A
156
G
seg6:
C
223
T
seg6:
A
226
G
seg6:
C
227
A
seg6:
C
275
T
seg6:
T
335
C
seg6:
T
353
C
seg6:
C
452
A
seg6:
G
758
A
seg6:
C
773
T
seg6:
A
785
G
seg6:
A
818
G
seg6:
C
893
T
seg6:
G
905
T
seg6:
G
914
T
seg6:
G
1025
A
Show more
Deletions
None
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:
K
54
Q
HA1:
S
74
R
HA1:
S
75
A
HA1:
P
83
S
HA1:
S
84
N
HA1:
D
97
N
HA1:
N
129
D
HA1:
P
137
S
HA1:
K
142
R
HA1:
N
156
Q
HA1:
L
161
I
HA1:
S
162
N
HA1:
K
163
Q
HA1:
S
164
T
HA1:
S
183
P
HA1:
S
185
M
HA1:
A
186
T
HA1:
Q
189
E
Show more
HA2
HA2:
E
29
D
HA2:
I
45
V
HA2:
E
47
K
HA2:
V
66
I
HA2:
I
91
V
HA2:
K
116
E
HA2:
S
124
H
HA2:
E
172
K
HA2:
E
179
D
NA
NA:
M
15
V
NA:
N
50
D
NA:
T
72
I
NA:
N
73
R
NA:
K
369
R
NA:
G
382
A
NA:
V
453
M
SigPep
SigPep:
L
8
M
SigPep:
A
13
T
Deletions
None
Insertions
None
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