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Influenza A/H5N1
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GSD_0062WNH.1
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USA/GSD_0062WNH.1/2026-06-16
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
QB002019.1.seg1/QB002020.1.seg2/QB002021.1.seg3/QB002022.1.seg4/QB002023.1.seg5/QB002024.1.seg6/QB002025.1.seg7/QB002026.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2026-09-16 08:44:48 UTC
Date released
2026-09-16 09:19:24 UTC
INSDC
bioprojectAccession
PRJNA1102327
biosampleAccession
SAMN62212075
INSDC accession seg1
QB002019.1
INSDC accession seg2
QB002020.1
INSDC accession seg3
QB002021.1
INSDC accession seg4
QB002022.1
INSDC accession seg5
QB002023.1
INSDC accession seg6
QB002024.1
INSDC accession seg7
QB002025.1
INSDC accession seg8
QB002026.1
NCBI release date
2026-09-14
SRA run accession
SRR40021444
Clade
clade
2.3.4.4b
Sample details
Collection country
USA
Collection subdivision level 1
ID
Collection date
2026-06-16
Isolate name
A/cattle/ID/26G09261-003-original-tile/2026
INSDC seg4
subtype_seg4
H5
INSDC seg6
subtype_seg6
N1
Alignment and QC
Length seg1
2273 (97.1%)
Total SNPs seg1
361
Length seg2
2253 (96.2%)
Total SNPs seg2
275
Length seg3
2151 (96.3%)
Total SNPs seg3
174
Length seg4
1704 (97%)
Total deleted nucs seg4
3
Total SNPs seg4
189
Length seg5
1497 (95.7%)
Total SNPs seg5
183
Length seg6
1401 (96.1%)
Total SNPs seg6
151
Length seg7
967 (94.2%)
Total SNPs seg7
62
Length seg8
838 (96.9%)
Frame shifts seg8
NS1:23-26(nt:80-92),NS1:55-57(nt:177-184),NS1:70-75(nt:222-238)
Total deleted nucs seg8
15
Total frame shifts seg8
3
Total inserted nucs seg8
15
Total SNPs seg8
215
Nucleotide mutations
Mutations called relative to the
NC_007357.1
,
NC_007358.1
,
NC_007359.1
,
NC_007362.1
,
NC_007360.1
,
NC_007361.1
,
NC_007363.1
&
NC_007364.1
references
Substitutions
seg1
A
48
G
G
63
A
C
69
T
A
90
C
G
102
T
T
105
C
T
108
C
A
126
G
G
147
A
T
159
A
A
199
G
A
211
C
G
222
A
T
228
C
G
243
A
G
255
C
T
258
C
G
267
A
Show more
seg2
T
48
C
A
54
G
G
60
T
T
75
C
T
81
C
T
93
G
C
138
T
C
153
T
G
180
A
G
195
A
A
199
T
G
204
A
T
207
C
A
210
G
C
216
T
G
228
A
C
241
T
A
243
G
Show more
seg3
G
81
A
A
117
G
G
120
A
G
144
A
G
154
A
A
171
G
C
180
T
T
189
C
G
195
A
C
206
T
A
207
G
A
211
G
C
228
A
G
249
A
A
255
G
G
270
A
A
276
G
A
277
G
Show more
seg4
A
30
C
G
36
A
T
39
A
C
54
T
T
57
C
C
63
T
C
102
T
G
114
A
T
141
C
T
183
C
C
192
A
T
198
C
A
207
G
T
216
A
C
219
G
T
223
C
G
225
A
G
227
A
Show more
seg5
G
57
A
T
72
C
G
81
A
A
96
G
T
111
C
G
117
A
G
124
A
T
147
C
T
153
C
G
159
A
T
162
C
T
165
C
A
183
G
C
195
T
C
198
T
T
199
C
T
201
C
A
207
G
Show more
seg6
T
43
C
G
69
A
A
75
G
A
78
G
T
80
C
T
90
C
A
92
G
C
122
T
T
125
C
T
134
C
G
137
A
C
150
T
A
155
G
G
156
C
T
179
C
C
184
A
T
185
C
A
191
G
Show more
seg7
A
76
G
G
112
A
A
127
G
C
142
T
A
163
G
A
205
G
G
268
A
T
275
C
A
279
G
A
285
C
T
292
C
T
301
C
T
307
C
G
310
A
T
316
C
C
320
T
A
322
G
A
327
G
Show more
seg8
A
30
T
C
34
G
T
50
C
T
53
C
A
55
T
A
59
T
C
65
T
A
66
G
A
68
C
A
69
C
A
71
C
G
74
A
T
76
G
C
78
T
T
83
A
A
84
C
T
85
C
T
96
G
Show more
Deletions
seg4
1054-1056
seg8
36-38, 90, 93, 189-194, 239-242
Insertions
seg8
ins_28:TGT, ins_79:TG, ins_176:G, ins_184:ACTCG, ins_221:GCGG
Amino acid substitutions
Substitutions called relative to the
NC_007357.1
,
NC_007358.1
,
NC_007359.1
,
NC_007362.1
,
NC_007360.1
,
NC_007361.1
,
NC_007363.1
&
NC_007364.1
references
Substitutions
HA
HA:
K
3
N
HA:
R
69
K
HA:
N
88
R
HA:
K
98
R
HA:
S
100
N
HA:
D
104
G
HA:
D
110
S
HA:
F
111
L
HA:
L
120
M
HA:
T
124
I
HA:
S
139
P
HA:
D
142
E
HA:
A
143
T
HA:
S
145
L
HA:
V
147
M
HA:
S
149
A
HA:
H
154
Q
HA:
R
156
A
Show more
M1
M1:
N
85
S
M1:
N
87
T
M1:
K
101
R
M1:
T
140
A
M1:
F
144
L
M1:
M
165
I
M1:
A
200
V
M1:
A
227
T
M1:
K
230
R
M1:
N
232
D
M1:
M
248
L
M2
M2:
E
14
G
M2:
K
18
N
M2:
V
28
I
M2:
R
61
G
M2:
D
88
N
NA
NA:
I
8
T
NA:
V
17
I
NA:
I
19
V
NA:
I
20
V
NA:
H
44
Y
NA:
A
46
P
NA:
T
55
N
NA:
V
67
I
NA:
N
71
S
NA:
T
72
A
NA:
T
76
A
NA:
K
78
Q
NA:
A
81
T
NA:
V
99
I
NA:
H
100
Y
NA:
K
111
R
NA:
H
155
Y
NA:
T
188
I
Show more
NP
NP:
A
27
T
NP:
Y
52
H
NP:
V
105
M
NP:
M
136
L
NP:
A
353
V
NP:
S
450
N
NP:
S
451
A
NP:
S
482
N
NS1
NS1:
I
6
V
NS1:
T
7
L
NS1:
Y
14
F
NS1:
I
18
V
NS1:
L
21
R
NS1:
L
22
F
NS1:
C
28
G
NS1:
D
33
L
NS1:
A
42
S
NS1:
K
44
R
NS1:
M
59
R
NS1:
E
60
T
NS1:
K
63
Q
NS1:
D
67
G
NS1:
I
79
M
NS1:
A
80
T
NS1:
S
84
V
NS1:
I
90
L
Show more
NS2
NS2:
I
6
V
NS2:
T
7
L
NS2:
Q
14
M
NS2:
E
22
G
NS2:
V
26
E
NS2:
D
27
G
NS2:
R
37
S
NS2:
I
40
L
NS2:
S
48
A
NS2:
M
49
V
NS2:
N
60
S
NS2:
A
63
G
NS2:
T
64
K
NS2:
N
67
G
NS2:
E
68
Q
NS2:
A
81
E
NS2:
C
83
V
NS2:
N
85
H
Show more
PA
PA:
V
44
I
PA:
T
61
M
PA:
I
63
V
PA:
T
85
A
PA:
I
94
V
PA:
K
113
R
PA:
T
129
I
PA:
V
201
I
PA:
C
212
R
PA:
R
213
K
PA:
L
219
T
PA:
K
228
N
PA:
S
277
P
PA:
R
361
K
PA:
K
399
E
PA:
P
400
S
PA:
L
425
F
PA:
V
432
I
Show more
PAX
PAX:
V
44
I
PAX:
T
61
M
PAX:
I
63
V
PAX:
T
85
A
PAX:
I
94
V
PAX:
K
113
R
PAX:
T
129
I
PAX:
S
193
N
PAX:
G
209
E
PAX:
L
210
P
PAX:
G
213
S
PAX:
S
219
L
PAX:
L
221
R
PAX:
I
222
T
PAX:
N
228
T
PAX:
R
250
Q
PAX:
K
252
R
PB1
PB1:
T
59
S
PB1:
E
75
D
PB1:
K
134
N
PB1:
M
171
V
PB1:
G
177
E
PB1:
M
179
I
PB1:
I
182
T
PB1:
M
195
I
PB1:
R
430
K
PB1:
E
460
Q
PB1:
R
465
K
PB1:
T
478
S
PB1:
C
490
F
PB1:
M
535
I
PB1:
D
536
N
PB1:
T
543
S
PB1:
P
558
T
PB1:
A
587
P
Show more
PB2
PB2:
T
58
A
PB2:
V
109
I
PB2:
V
139
I
PB2:
N
334
S
PB2:
K
340
R
PB2:
K
355
R
PB2:
E
362
G
PB2:
D
441
N
PB2:
A
471
T
PB2:
V
478
I
PB2:
V
495
I
PB2:
Q
508
R
PB2:
S
579
P
PB2:
S
590
G
PB2:
P
628
Q
PB2:
M
631
L
PB2:
V
649
I
PB2:
K
670
R
Show more
Deletions
HA
HA:344
NS1
NS1:27, NS1:76
Insertions
N/A
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