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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_00J3KU2.1
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USA/GS_00J3KU2.1/2026-07-05
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
PZ804916.1.seg1/PZ804917.1.seg2/PZ804918.1.seg3/PZ804919.1.seg4/PZ804920.1.seg6/PZ804921.1.seg7/PZ804922.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2026-08-08 07:39:47 UTC
Date released
2026-08-08 07:40:21 UTC
INSDC
bioprojectAccession
PRJNA967387
biosampleAccession
SAMN62183261
INSDC accession seg1
PZ804916.1
INSDC accession seg2
PZ804917.1
INSDC accession seg3
PZ804918.1
INSDC accession seg4
PZ804919.1
INSDC accession seg6
PZ804920.1
INSDC accession seg7
PZ804921.1
INSDC accession seg8
PZ804922.1
NCBI release date
2026-08-07
SRA run accession
SRR40001022
Clade
Clade HA
D.3.1
Clade NA
D.1
Sample details
Collection country
USA
Collection subdivision level 1
California
Collection date
2026-07-05
Isolate name
A/California/LACPHL-INF02811/2026
INSDC seg4
subtype_seg4
H1
INSDC seg6
subtype_seg6
N1
Alignment and QC
Length seg1
2280 (100%)
Total SNPs seg1
89
Length seg2
2228 (98%)
Total SNPs seg2
75
Length seg3
2144 (99.7%)
Total SNPs seg3
84
Length seg4
1701 (97.1%)
Total SNPs seg4
115
Length seg6
1392 (97.1%)
Total SNPs seg6
29
Length seg7
982 (100%)
Total SNPs seg7
32
Length seg8
855 (99.1%)
Total SNPs seg8
33
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
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
A
159
G
G
168
A
G
180
A
C
192
T
C
201
T
T
207
A
T
210
C
T
222
C
G
225
A
C
297
T
G
312
A
T
324
A
G
354
A
A
366
G
C
447
T
T
450
C
G
461
A
T
474
C
Show more
seg3
G
40
A
R
53
A
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
G
298
A
A
363
G
G
423
A
G
477
A
G
498
A
Show more
seg4
A
38
G
C
42
A
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
Show more
seg6
A
33
G
T
68
C
C
182
T
C
221
T
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
C
845
T
G
881
T
C
893
T
Show more
seg7
G
48
A
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
574
G
C
622
A
G
660
A
Show more
seg8
C
6
A
C
42
T
C
54
T
G
60
A
T
99
C
C
108
A
T
159
C
G
163
A
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
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:
N
156
K
HA1:
S
157
L
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:
I
91
V
HA2:
S
124
H
HA2:
I
133
T
HA2:
T
147
I
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:
T
9
A
NA:
N
73
H
NA:
A
98
V
NA:
S
200
N
NA:
I
264
T
NA:
V
453
M
NA:
K
469
N
NEP
NEP:
N
29
S
NEP:
T
48
A
NEP:
M
83
I
NS1
NS1:
E
55
K
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
14
I
PA:
X
18
E
PA:
I
30
V
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
14
I
PA-X:
X
18
E
PA-X:
I
30
V
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:
G
154
D
PB1:
M
195
I
PB1:
V
200
I
PB1:
K
386
R
PB1:
I
397
M
PB1:
I
435
T
PB1:
P
454
S
PB1:
D
729
E
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:
I
451
V
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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