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Influenza A/H1N1pdm
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Influenza A
Influenza A/H1N1pdm
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Influenza A/H1N1pdm
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GSD_003HU7N.1
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USA/GSD_003HU7N.1/2026-08-04
E. B. Fox,
J. M. Garrigues &
N. M. Green
Los Angeles County Public Health Lab microbial pathogen submission group, Los Angeles County Public Health Laboratories
Submission details
Submission ID
PZ962562.1.seg1/PZ962563.1.seg2/PZ962564.1.seg3/PZ962565.1.seg4/PZ962566.1.seg5/PZ962567.1.seg6/PZ962568.1.seg7/PZ962569.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2026-09-16 07:48:02 UTC
Date released
2026-09-16 08:39:22 UTC
INSDC
bioprojectAccession
PRJNA967387
biosampleAccession
SAMN63036744
INSDC accession seg1
PZ962562.1
INSDC accession seg2
PZ962563.1
INSDC accession seg3
PZ962564.1
INSDC accession seg4
PZ962565.1
INSDC accession seg5
PZ962566.1
INSDC accession seg6
PZ962567.1
INSDC accession seg7
PZ962568.1
INSDC accession seg8
PZ962569.1
NCBI release date
2026-09-09
SRA run accession
SRR40592382
Clade
Clade HA
D.3.1
Clade NA
D.1
Sample details
Collection country
USA
Collection subdivision level 1
California
Collection date
2026-08-04
Isolate name
A/California/LACPHL-INF02833/2026
INSDC seg4
subtype_seg4
H1
INSDC seg6
subtype_seg6
N1
Alignment and QC
Length seg1
2240 (97%)
Total SNPs seg1
90
Total unknown nucs seg1
28
Length seg2
1530 (67.3%)
Total SNPs seg2
55
Length seg3
1981 (92.1%)
Total SNPs seg3
72
Length seg4
1657 (91.4%)
Total SNPs seg4
106
Total unknown nucs seg4
55
Length seg5
1456 (90.5%)
Total SNPs seg5
54
Total unknown nucs seg5
101
Length seg6
1225 (85.5%)
Total SNPs seg6
24
Length seg7
919 (93.6%)
Total SNPs seg7
31
Length seg8
629 (72.9%)
Total SNPs seg8
24
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
T
63
C
G
66
A
A
90
C
A
96
G
A
108
G
A
132
G
A
138
G
G
161
A
A
174
G
T
201
C
A
225
G
A
226
T
C
242
T
A
243
G
C
261
T
C
285
A
A
291
G
C
309
T
Show more
seg2
C
759
T
G
810
A
A
819
G
C
844
T
T
852
C
C
885
T
G
924
A
A
933
G
G
957
T
G
960
A
T
984
C
G
993
A
C
999
T
C
1038
T
G
1056
A
C
1131
T
C
1140
T
A
1157
G
Show more
seg3
G
187
A
G
204
A
G
298
A
G
423
A
G
477
A
G
498
A
G
504
A
G
597
A
A
612
G
G
618
A
G
663
A
C
670
T
A
673
T
T
687
C
G
785
A
G
810
A
G
819
A
T
831
C
Show more
seg4
A
47
G
G
57
A
A
119
G
T
161
C
C
164
T
G
188
A
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
G
42
T
G
54
A
C
87
T
A
97
G
C
141
A
A
168
T
C
171
T
T
177
C
C
180
T
C
249
A
T
365
A
T
402
C
A
406
C
C
426
T
G
459
A
T
465
C
C
471
T
T
516
C
Show more
seg6
A
225
C
C
301
T
T
347
C
C
401
T
C
452
A
C
572
A
G
607
A
A
785
G
G
788
A
T
799
C
A
818
G
G
881
T
C
893
T
G
905
A
G
914
T
A
1049
G
C
1187
T
A
1193
G
Show more
seg7
G
75
A
T
123
C
C
124
A
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
534
G
A
574
G
C
622
A
G
660
A
Show more
seg8
C
192
T
C
204
T
A
238
G
G
250
A
C
264
T
C
268
A
C
315
T
A
367
G
A
375
T
A
391
G
G
396
A
T
414
C
G
463
A
A
558
G
A
614
G
A
661
G
G
664
A
A
670
G
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
N
HA1:
K
142
R
HA1:
V
152
I
HA1:
N
156
K
HA1:
L
161
I
HA1:
S
162
N
HA1:
K
163
Q
HA1:
S
164
T
Show more
HA2
HA2:
E
29
D
HA2:
I
45
V
HA2:
E
47
K
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
M2:
I
32
V
NA
NA:
N
73
H
NA:
A
98
V
NA:
S
200
N
NA:
I
264
T
NA:
V
453
M
NEP
NEP:
N
29
S
NEP:
T
48
A
NEP:
M
83
I
NP
NP:
E
14
D
NP:
I
33
V
NP:
L
122
Q
NP:
I
136
L
NP:
V
217
I
NP:
V
425
I
NS1
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:
N
205
S
PA
PA:
V
63
I
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-X
PA-X:
V
63
I
PA-X:
V
100
I
PA-X:
R
199
K
PA-X:
N
204
S
PA-X:
R
206
K
PA-X:
R
221
Q
PA-X:
L
229
S
PB1
PB1:
K
386
R
PB1:
I
397
M
PB1:
I
435
T
PB1:
P
454
S
PB1:
I
535
V
PB1:
V
587
I
PB1:
D
729
E
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
251
K
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:
A
13
T
Deletions
N/A
Insertions
N/A
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