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Influenza A/H1N1pdm
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Influenza A/H1N1pdm
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Influenza A/H1N1pdm
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GS_00J5GMF.1
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Hong_Kong/GS_00J5GMF.1/2026-05-09
B. J. Cowling,
N. H. L. Leung,
S. M. S. Cheng &
M. Peiris
The University of Hong Kong, WHO Collaborating Centre for Infectious Disease Epidemiology and Control, School of Public Health
Submission details
Submission ID
PZ861029.1.seg1/PZ861028.1.seg2/PZ861027.1.seg3/PZ861022.1.seg4/PZ861025.1.seg5/PZ861024.1.seg6/PZ861023.1.seg7/PZ861026.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2026-08-27 07:39:48 UTC
Date released
2026-08-27 07:40:36 UTC
Clade
Clade HA
D.3.1
Clade NA
D
Sample details
Collection country
Hong Kong
Collection date
2026-05-09
Isolate name
A/Hong Kong/EPI1584/2026
INSDC
INSDC accession seg1
PZ861029.1
INSDC accession seg2
PZ861028.1
INSDC accession seg3
PZ861027.1
INSDC accession seg4
PZ861022.1
INSDC accession seg5
PZ861025.1
INSDC accession seg6
PZ861024.1
INSDC accession seg7
PZ861023.1
INSDC accession seg8
PZ861026.1
NCBI release date
2026-08-20
INSDC seg4
subtype_seg4
H1
INSDC seg6
subtype_seg6
N1
Alignment and QC
Length seg1
2280 (100%)
Total SNPs seg1
88
Length seg2
2274 (100%)
Total SNPs seg2
74
Length seg3
2151 (100%)
Total SNPs seg3
89
Length seg4
1701 (97%)
Total ambiguous nucs seg4
1
Total SNPs seg4
107
Length seg5
1497 (100%)
Total SNPs seg5
61
Length seg6
1410 (98.4%)
Total SNPs seg6
23
Length seg7
981 (99.9%)
Total SNPs seg7
33
Length seg8
837 (97%)
Total SNPs seg8
37
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
seg1
A
18
G
G
36
A
G
66
A
A
90
C
A
96
G
A
108
G
A
132
G
G
161
A
A
174
G
T
201
C
G
207
A
A
225
G
A
226
T
C
242
T
A
243
G
C
261
T
C
285
A
A
291
G
Show more
seg2
G
42
A
A
63
G
T
81
C
A
159
G
G
168
A
G
180
A
C
192
A
G
204
A
T
207
A
T
210
C
T
222
C
G
225
A
C
297
T
G
312
A
A
345
G
A
366
G
T
384
C
C
447
T
Show more
seg3
G
40
A
R
53
A
A
56
G
T
81
C
G
84
C
A
88
G
C
90
T
C
99
T
A
114
T
C
153
T
C
162
T
C
165
T
G
187
A
G
204
A
A
280
G
G
298
A
G
423
A
C
468
T
Show more
seg4
A
38
G
C
42
A
G
57
A
A
119
G
T
161
C
C
164
T
A
231
C
C
281
A
C
293
G
C
318
T
G
322
A
G
360
A
G
409
A
G
416
A
A
429
G
C
443
T
A
456
G
A
461
T
Show more
seg5
A
33
G
G
42
T
C
87
T
A
97
G
C
141
A
C
171
T
T
177
C
C
180
T
C
249
A
A
288
C
G
298
A
C
303
T
G
309
A
T
314
C
G
315
A
R
341
A
T
365
A
A
390
G
Show more
seg6
C
285
T
A
392
G
C
452
A
C
571
T
G
607
A
G
659
A
C
728
A
G
748
A
A
785
G
T
799
C
A
818
G
C
893
T
G
914
T
C
929
T
G
950
A
T
1016
C
A
1049
G
C
1187
T
Show more
seg7
G
48
A
G
75
A
T
123
C
C
124
A
T
168
C
T
237
C
G
238
A
G
258
A
A
293
G
G
306
A
G
339
A
G
342
A
C
375
A
T
432
C
G
441
T
G
492
A
C
507
A
A
574
G
Show more
seg8
C
6
A
C
42
T
C
54
T
T
99
C
C
108
A
T
159
C
G
163
A
C
192
T
C
204
T
A
226
T
A
238
G
G
250
A
C
264
T
C
267
T
C
268
A
C
315
T
A
367
G
A
375
T
Show more
Deletions
N/A
Insertions
N/A
Amino acid substitutions
Substitutions 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:
P
83
S
HA1:
S
84
N
HA1:
D
97
N
HA1:
R
113
K
HA1:
T
120
A
HA1:
N
129
D
HA1:
K
130
N
HA1:
P
137
S
HA1:
A
139
D
HA1:
K
142
R
HA1:
N
156
K
HA1:
L
161
I
HA1:
S
162
N
HA1:
K
163
Q
HA1:
S
164
T
HA1:
S
183
P
Show more
HA2
HA2:
E
29
D
HA2:
I
45
V
HA2:
E
47
K
HA2:
I
91
V
HA2:
S
124
H
HA2:
I
133
T
HA2:
E
172
K
HA2:
E
179
D
HA2:
V
193
A
M1
M1:
L
42
I
M1:
V
80
I
M1:
K
98
R
M1:
M
192
V
M1:
Q
208
K
M1:
K
230
R
M2
M2:
R
18
K
M2:
D
21
G
M2:
S
23
N
M2:
I
28
T
NA
NA:
P
93
S
NA:
T
188
I
NA:
S
200
N
NA:
S
247
N
NA:
I
264
T
NA:
M
314
I
NA:
V
453
M
NA:
K
469
N
NEP
NEP:
D
2
E
NEP:
M
14
T
NEP:
N
29
S
NEP:
T
48
A
NEP:
M
83
I
NP
NP:
E
14
D
NP:
I
33
V
NP:
V
100
I
NP:
M
105
T
NP:
X
114
E
NP:
L
122
Q
NP:
I
136
L
NP:
V
217
I
NP:
N
417
S
NP:
V
425
I
NP:
S
498
N
NS1
NS1:
D
2
E
NS1:
E
55
K
NS1:
T
76
S
NS1:
T
80
A
NS1:
V
84
I
NS1:
L
90
I
NS1:
I
123
V
NS1:
E
125
D
NS1:
K
131
E
NS1:
A
155
T
NS1:
P
164
S
NS1:
V
178
I
NS1:
N
205
S
PA
PA:
V
14
I
PA:
X
18
E
PA:
K
19
R
PA:
I
30
V
PA:
V
63
I
PA:
I
94
V
PA:
V
100
I
PA:
P
224
S
PA:
S
225
C
PA:
R
262
K
PA:
N
321
K
PA:
I
330
V
PA:
A
337
T
PA:
K
339
N
PA:
R
362
K
PA:
I
438
V
PA:
I
505
V
PA:
R
559
K
PA-X
PA-X:
V
14
I
PA-X:
X
18
E
PA-X:
K
19
R
PA-X:
I
30
V
PA-X:
V
63
I
PA-X:
I
94
V
PA-X:
V
100
I
PA-X:
R
199
K
PA-X:
R
206
K
PA-X:
R
221
Q
PA-X:
L
229
S
PB1
PB1:
G
154
D
PB1:
V
200
I
PB1:
N
328
D
PB1:
K
386
R
PB1:
I
397
M
PB1:
I
435
T
PB1:
K
757
R
PB2
PB2:
R
54
K
PB2:
T
76
S
PB2:
T
81
M
PB2:
K
187
R
PB2:
D
195
N
PB2:
G
225
S
PB2:
R
293
K
PB2:
R
299
K
PB2:
V
344
M
PB2:
I
354
L
PB2:
S
453
T
PB2:
L
475
M
PB2:
I
559
M
PB2:
V
667
I
PB2:
V
731
I
SigPep
SigPep:
L
8
M
SigPep:
A
13
T
Deletions
N/A
Insertions
N/A
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