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Influenza A/H1N1pdm
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Influenza A/H1N1pdm
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GS_00J3KT4.1
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USA/GS_00J3KT4.1/2026-06-08
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
PZ804909.1.seg1/PZ804910.1.seg2/PZ804911.1.seg3/PZ804912.1.seg4/PZ804913.1.seg6/PZ804914.1.seg7/PZ804915.1.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
SAMN62183260
INSDC accession seg1
PZ804909.1
INSDC accession seg2
PZ804910.1
INSDC accession seg3
PZ804911.1
INSDC accession seg4
PZ804912.1
INSDC accession seg6
PZ804913.1
INSDC accession seg7
PZ804914.1
INSDC accession seg8
PZ804915.1
NCBI release date
2026-08-07
SRA run accession
SRR40001023
Clade
Clade HA
D.3.1
Clade NA
D.1
Sample details
Collection country
USA
Collection subdivision level 1
California
Collection date
2026-06-08
Isolate name
A/California/LACPHL-INF02810/2026
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
78
Length seg3
2151 (100%)
Total SNPs seg3
84
Length seg4
1701 (97.1%)
Total SNPs seg4
111
Length seg6
1394 (97.2%)
Total ambiguous nucs seg6
1
Total SNPs seg6
26
Length seg7
982 (100%)
Total SNPs seg7
33
Length seg8
855 (99.1%)
Total SNPs seg8
34
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
C
27
T
G
42
A
C
123
T
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
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
399
A
G
423
A
G
477
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
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
822
T
G
881
T
C
893
T
G
914
T
A
1049
G
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
T
642
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:
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:
H
214
Q
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:
P
272
S
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:
V
178
I
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:
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:
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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