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Influenza A/H3N2
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GS_00JUGL4.1
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Download FASTA
Download metadata TSV
USA/GS_00JUGL4.1/2026-08-14
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
QB185061.1.seg1/QB185062.1.seg2/QB185063.1.seg3/QB185064.1.seg4/QB185065.1.seg5/QB185066.1.seg6/QB185067.1.seg7/QB185068.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2026-10-18 08:10:19 UTC
Date released
2026-10-20 21:24:03 UTC
INSDC
bioprojectAccession
PRJNA1207547
biosampleAccession
SAMN63183619
INSDC accession seg1
QB185061.1
INSDC accession seg2
QB185062.1
INSDC accession seg3
QB185063.1
INSDC accession seg4
QB185064.1
INSDC accession seg5
QB185065.1
INSDC accession seg6
QB185066.1
INSDC accession seg7
QB185067.1
INSDC accession seg8
QB185068.1
NCBI release date
2026-10-16
SRA run accession
SRR40707556
Clade
Clade HA
unassigned
Sample details
Collection country
USA
Collection subdivision level 1
MI
Collection date
2026-08-14
Isolate name
A/Mallard Duck/MI/26G11690-064-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
389
Length seg2
2274 (97.1%)
Total SNPs seg2
290
Length seg3
2151 (96.3%)
Total SNPs seg3
336
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
332
Length seg5
1497 (95.6%)
Total SNPs seg5
269
Length seg7
982 (95.6%)
Total SNPs seg7
105
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
C
54
T
G
57
A
G
63
A
G
66
A
T
75
C
G
87
A
A
90
C
A
93
G
A
99
T
G
102
T
T
108
C
T
120
C
G
123
A
A
132
C
Show more
seg2
C
43
T
G
48
C
C
52
T
A
54
G
G
57
A
T
93
G
C
138
T
C
165
T
G
177
A
G
180
A
G
186
A
G
192
A
T
198
C
A
199
T
G
210
A
C
216
T
C
225
T
A
240
T
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
C
44
T
A
45
T
C
48
T
A
50
C
T
58
C
C
62
A
G
63
T
C
64
G
T
65
C
A
71
C
Show more
seg5
C
54
T
G
69
A
T
72
C
G
81
A
A
92
G
T
99
A
A
111
C
G
117
A
T
120
C
G
123
A
C
129
T
C
132
T
G
135
A
A
137
G
G
138
A
A
142
G
A
146
G
T
147
C
Show more
seg7
C
31
T
T
55
C
T
70
C
A
73
G
C
118
G
T
124
A
A
136
C
T
148
G
T
178
C
G
205
A
G
208
A
A
268
G
C
277
T
A
289
G
T
298
C
A
309
G
T
316
C
T
325
C
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
C
153
A
A
169
G
T
170
C
C
176
T
A
182
G
A
189
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
E
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
HA2:
N
218
S
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:
D
88
G
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:
L
43
I
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
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:
K
256
R
PA:
I
268
L
PA:
K
269
R
PA:
N
272
E
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:
E
209
G
PA-X:
L
210
P
PA-X:
V
212
A
PA-X:
G
213
D
Show more
PB1
PB1:
T
59
S
PB1:
M
179
I
PB1:
V
212
L
PB1:
G
216
S
PB1:
K
327
R
PB1:
I
336
V
PB1:
R
361
S
PB1:
R
386
K
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:
S
654
N
PB1:
N
667
V
PB1:
I
709
V
PB1:
S
741
A
PB1-F2
PB1-F2:
T
7
I
PB1-F2:
T
16
I
PB1-F2:
R
20
K
PB1-F2:
R
21
K
PB1-F2:
S
23
N
PB1-F2:
R
25
Q
PB1-F2:
I
27
T
PB1-F2:
G
31
E
PB1-F2:
P
33
L
PB1-F2:
T
36
I
PB1-F2:
H
41
L
PB1-F2:
Y
42
C
PB1-F2:
I
45
T
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
Show more
PB2
PB2:
N
9
D
PB2:
S
44
A
PB2:
T
64
M
PB2:
V
67
I
PB2:
M
81
T
PB2:
S
82
N
PB2:
V
105
T
PB2:
A
106
T
PB2:
D
120
E
PB2:
R
194
Q
PB2:
S
199
A
PB2:
I
227
V
PB2:
A
271
T
PB2:
T
292
I
PB2:
V
295
I
PB2:
K
340
R
PB2:
K
368
R
PB2:
V
382
I
Show more
SigPep
SigPep:
K
2
R
SigPep:
T
3
S
SigPep:
A
6
V
SigPep:
Y
9
C
SigPep:
I
10
F
SigPep:
L
11
F
SigPep:
V
14
A
SigPep:
F
15
L
SigPep:
A
16
C
Deletions
HA1
HA1:156, HA1:157, HA1:226, HA1:227
Insertions
N/A
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