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Influenza A/H3N2
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GS_00JRNJ8.1
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USA/GS_00JRNJ8.1/2026-08-06
M. Torchetti,
T. Stuber,
J. Hicks &
K. Lantz
USDA Animal Plant Health Inspection Service-National Veterinary Services Laboratories, National Veterinary Services Laboratories
Submission details
Submission ID
QB114024.1.seg1/QB114025.1.seg2/QB114026.1.seg3/QB114027.1.seg4/QB114028.1.seg5/QB114029.1.seg6/QB114030.1.seg7/QB114031.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2026-10-02 08:30:17 UTC
Date released
2026-10-20 21:21:30 UTC
INSDC
bioprojectAccession
PRJNA1207547
biosampleAccession
SAMN62862346
INSDC accession seg1
QB114024.1
INSDC accession seg2
QB114025.1
INSDC accession seg3
QB114026.1
INSDC accession seg4
QB114027.1
INSDC accession seg5
QB114028.1
INSDC accession seg6
QB114029.1
INSDC accession seg7
QB114030.1
INSDC accession seg8
QB114031.1
NCBI release date
2026-10-01
SRA run accession
SRR40476309
Clade
Clade HA
unassigned
Sample details
Collection country
USA
Collection subdivision level 1
MI
Collection date
2026-08-06
Isolate name
A/Mallard Duck/MI/26G11689-040-original/2026
Host
Host
Anas platyrhynchos
INSDC seg4
subtype_seg4
H3
INSDC seg6
subtype_seg6
N2
Alignment and QC
Length seg1
2280 (97.4%)
Total SNPs seg1
378
Length seg2
2274 (97.1%)
Total SNPs seg2
294
Length seg3
2151 (96.3%)
Total SNPs seg3
338
Length seg4
1701 (97.9%)
Frame shifts seg4
HA1:158-160(nt:535-545),HA1:225(nt:738-740)
Total deleted nucs seg4
9
Total frame shifts seg4
2
Total inserted nucs seg4
9
Total SNPs seg4
334
Length seg5
1497 (95.6%)
Total SNPs seg5
265
Length seg7
982 (95.6%)
Total SNPs seg7
103
Length seg8
838 (94.2%)
Total SNPs seg8
113
Length seg6
1410
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
seg1
A
33
G
C
49
A
G
51
A
A
52
G
G
63
A
G
87
C
A
90
C
C
96
T
A
99
C
T
108
C
T
120
C
G
123
A
G
126
A
G
138
A
A
141
G
G
144
A
A
147
G
G
156
C
Show more
seg2
C
43
T
G
48
T
C
52
T
A
54
G
G
57
A
C
83
T
T
93
G
T
105
C
C
138
T
C
153
T
C
165
T
G
177
A
G
180
A
G
183
A
G
186
A
G
192
A
A
199
T
G
210
A
Show more
seg3
C
54
T
G
57
A
T
63
C
A
69
G
A
75
G
A
81
G
G
93
A
A
99
G
G
102
A
T
107
C
G
108
A
T
114
C
A
117
G
A
132
T
C
144
A
A
156
G
T
177
C
C
186
T
Show more
seg4
A
22
G
A
24
T
T
26
C
C
29
T
C
34
T
T
36
C
C
41
T
A
43
G
A
45
T
A
50
C
T
58
C
G
63
T
C
64
G
T
65
C
A
71
C
T
73
C
C
75
T
C
77
A
Show more
seg5
C
54
T
G
69
A
A
92
G
G
96
A
T
99
A
A
111
C
G
117
A
T
120
C
G
123
A
C
129
T
C
132
T
A
137
G
A
142
G
A
146
G
T
153
C
C
168
A
A
171
G
T
180
C
Show more
seg7
C
31
T
T
55
C
T
70
C
A
73
G
C
118
G
T
124
A
A
130
G
A
136
T
T
148
G
A
157
G
A
163
G
T
178
C
G
205
A
G
208
A
C
277
T
A
289
G
T
298
C
A
309
G
Show more
seg8
T
50
C
C
53
T
T
62
C
A
78
G
G
83
C
A
88
G
G
90
T
T
94
C
A
108
G
T
128
C
G
148
A
A
169
G
T
170
C
C
176
T
A
182
G
A
189
G
A
191
G
G
192
A
Show more
Deletions
seg4
530-534, 741-744
Insertions
seg4
ins_545:GTGCT, ins_737:GGCC
Amino acid substitutions
Substitutions 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:
K
2
N
HA1:
L
3
P
HA1:
P
4
S
HA1:
G
5
E
HA1:
D
7
N
HA1:
S
9
N
HA1:
N
31
D
HA1:
G
50
K
HA1:
D
53
N
HA1:
S
54
N
HA1:
Q
57
R
HA1:
E
62
R
HA1:
N
63
D
HA1:
I
67
M
HA1:
Q
75
H
HA1:
G
78
V
HA1:
N
81
D
HA1:
K
82
E
Show more
HA2
HA2:
I
2
L
HA2:
V
18
I
HA2:
I
32
T
HA2:
N
46
D
HA2:
L
55
V
HA2:
G
57
E
HA2:
R
121
K
HA2:
K
123
R
HA2:
K
124
R
HA2:
G
150
E
HA2:
A
201
V
HA2:
L
202
I
HA2:
K
212
R
M1
M1:
K
95
R
M1:
I
115
V
M1:
A
121
T
M1:
A
137
T
M1:
A
167
T
M1:
K
174
R
M1:
I
205
V
M1:
A
218
T
M1:
V
219
I
M1:
T
227
A
M1:
R
230
K
M1:
T
239
A
M2
M2:
I
11
T
M2:
E
14
G
M2:
G
16
E
M2:
R
18
K
M2:
N
20
S
M2:
V
51
I
M2:
L
54
R
M2:
F
55
L
M2:
H
57
Y
M2:
K
78
Q
M2:
N
82
S
M2:
A
86
V
M2:
S
89
G
M2:
S
93
N
NEP
NEP:
L
14
M
NEP:
I
40
L
NEP:
L
57
S
NEP:
N
60
S
NEP:
G
70
S
NEP:
T
89
I
NEP:
F
107
L
NP
NP:
D
16
G
NP:
D
18
E
NP:
K
31
R
NP:
I
33
V
NP:
D
34
G
NP:
H
52
Y
NP:
L
61
I
NP:
K
65
R
NP:
V
100
R
NP:
V
109
I
NP:
I
136
L
NP:
I
186
V
NP:
V
197
I
NP:
K
214
R
NP:
S
217
I
NP:
V
239
M
NP:
A
280
V
NP:
P
283
L
Show more
NS1
NS1:
I
18
V
NS1:
Q
21
R
NS1:
V
22
F
NS1:
V
23
A
NS1:
S
28
G
NS1:
R
41
K
NS1:
N
48
S
NS1:
K
55
E
NS1:
A
56
T
NS1:
H
59
R
NS1:
V
60
A
NS1:
K
67
R
NS1:
K
70
E
NS1:
M
81
I
NS1:
V
82
A
NS1:
T
84
V
NS1:
I
90
L
NS1:
I
95
L
Show more
PA
PA:
L
28
P
PA:
N
55
D
PA:
Q
57
R
PA:
V
62
I
PA:
L
65
S
PA:
D
66
G
PA:
A
100
V
PA:
N
142
K
PA:
I
155
M
PA:
N
184
S
PA:
K
204
R
PA:
S
208
T
PA:
K
222
N
PA:
C
225
S
PA:
L
226
F
PA:
K
256
R
PA:
I
268
L
PA:
K
269
R
Show more
PA-X
PA-X:
L
28
P
PA-X:
N
55
D
PA-X:
Q
57
R
PA-X:
V
62
I
PA-X:
L
65
S
PA-X:
D
66
G
PA-X:
A
100
V
PA-X:
N
142
K
PA-X:
I
155
M
PA-X:
N
184
S
PA-X:
K
195
R
PA-X:
K
199
R
PA-X:
N
204
D
PA-X:
S
207
L
PA-X:
L
210
P
PA-X:
V
212
A
PA-X:
L
214
S
PA-X:
N
222
T
PA-X:
R
227
K
PA-X:
I
228
T
PB1
PB1:
T
20
I
PB1:
T
59
S
PB1:
V
113
I
PB1:
V
212
L
PB1:
G
216
S
PB1:
K
327
R
PB1:
I
336
V
PB1:
R
361
S
PB1:
V
423
I
PB1:
K
430
R
PB1:
K
486
R
PB1:
D
581
E
PB1:
Q
584
R
PB1:
R
586
K
PB1:
N
619
D
PB1:
R
621
Q
PB1:
E
636
G
PB1:
N
667
I
PB1:
I
709
V
PB1:
S
741
A
PB1-F2
PB1-F2:
T
7
I
PB1-F2:
S
12
L
PB1-F2:
T
16
I
PB1-F2:
R
20
K
PB1-F2:
R
21
K
PB1-F2:
G
22
E
PB1-F2:
S
23
N
PB1-F2:
R
25
Q
PB1-F2:
G
31
E
PB1-F2:
Y
42
C
PB1-F2:
I
45
T
PB1-F2:
S
47
N
PB1-F2:
Q
54
R
PB1-F2:
W
58
L
PB1-F2:
R
59
K
PB1-F2:
L
60
Q
PB1-F2:
P
62
L
PB1-F2:
S
63
F
Show more
PB2
PB2:
N
9
D
PB2:
S
44
A
PB2:
T
64
M
PB2:
V
67
I
PB2:
M
81
T
PB2:
V
105
T
PB2:
A
106
T
PB2:
D
120
E
PB2:
K
187
R
PB2:
R
194
Q
PB2:
S
199
A
PB2:
I
227
V
PB2:
A
271
T
PB2:
T
292
I
PB2:
K
340
R
PB2:
K
368
R
PB2:
V
382
I
PB2:
H
453
P
Show more
SigPep
SigPep:
K
2
R
SigPep:
T
3
S
SigPep:
A
6
V
SigPep:
Y
9
C
SigPep:
I
10
F
SigPep:
V
14
A
SigPep:
A
16
C
Deletions
HA1
HA1:156, HA1:157, HA1:226, HA1:227
Insertions
N/A
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