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GS_00D6HQB.1
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Display Name: USA/GS_00D6HQB.1/2025-02-06
Dohrn,
C.; Dunn,
D.; Gauger,
P. C.
Submission details
Submission ID
PV240836.1.seg4/PV240837.1.seg6
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-03-11 11:05:23 UTC
Date released
2025-03-11 14:51:32 UTC
Authors
Author affiliations
Iowa State University Veterinary Diagnostic Lab, Bioinformatics
Clade
Clade ha
3C.2a1
Clade na
A.2
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
108
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
97
Total unknown nucs seg6
0
Sample details
Collection country
USA
Collection subdivision level 1
Iowa
Collection date
2025-02-06
Isolate name
A02858356
Host
Host name scientific
Sus scrofa
Host taxon id
9823
INSDC
INSDC accession seg4
PV240836.1
INSDC accession seg6
PV240837.1
NCBI release date
2025-03-06
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:
T
46
G
seg4:
T
53
C
seg4:
G
56
A
seg4:
G
57
A
seg4:
C
72
A
seg4:
C
77
T
seg4:
C
89
T
seg4:
A
90
G
seg4:
G
95
A
seg4:
C
116
T
seg4:
C
152
T
seg4:
G
155
A
seg4:
A
156
G
seg4:
A
163
G
seg4:
T
173
C
seg4:
C
189
T
seg4:
G
199
A
seg4:
C
208
T
Show more
seg6
seg6:
G
30
A
seg6:
C
57
T
seg6:
A
58
G
seg6:
T
88
C
seg6:
T
92
C
seg6:
T
96
C
seg6:
A
143
G
seg6:
T
158
A
seg6:
T
162
C
seg6:
C
205
T
seg6:
C
216
A
seg6:
C
219
T
seg6:
T
233
C
seg6:
C
240
T
seg6:
C
244
T
seg6:
T
245
C
seg6:
G
270
A
seg6:
A
276
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:
L
3
I
HA1:
S
9
G
HA1:
N
31
D
HA1:
Q
33
R
HA1:
S
45
N
HA1:
T
48
I
HA1:
G
50
E
HA1:
D
53
N
HA1:
I
58
V
HA1:
I
67
V
HA1:
G
78
D
HA1:
K
83
Q
HA1:
K
92
R
HA1:
A
106
V
HA1:
N
121
E
HA1:
D
122
N
HA1:
R
142
G
HA1:
N
144
E
Show more
HA2
HA2:
I
32
R
HA2:
N
46
D
HA2:
I
77
V
HA2:
R
121
K
HA2:
I
149
M
HA2:
G
150
E
HA2:
S
151
T
HA2:
D
160
N
NA
NA:
T
19
A
NA:
I
30
T
NA:
N
47
S
NA:
L
52
Q
NA:
I
77
T
NA:
L
81
S
NA:
N
93
G
NA:
D
127
E
NA:
D
147
N
NA:
V
149
A
NA:
V
194
I
NA:
K
199
N
NA:
I
215
V
NA:
E
221
N
NA:
T
238
A
NA:
S
247
A
NA:
T
267
K
NA:
L
285
P
Show more
SigPep
SigPep:
I
10
S
SigPep:
V
14
I
Deletions
None
Insertions
None
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