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Influenza A/H1N1pdm
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GSD_003HU6Q.1
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USA/GSD_003HU6Q.1/2026-08-13
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
PZ962555.1.seg1/PZ962556.1.seg2/PZ962557.1.seg3/PZ962558.1.seg4/PZ962559.1.seg5/PZ962560.1.seg6/PZ962561.1.seg7
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
SAMN63036743
INSDC accession seg1
PZ962555.1
INSDC accession seg2
PZ962556.1
INSDC accession seg3
PZ962557.1
INSDC accession seg4
PZ962558.1
INSDC accession seg5
PZ962559.1
INSDC accession seg6
PZ962560.1
INSDC accession seg7
PZ962561.1
NCBI release date
2026-09-09
SRA run accession
SRR40592383
Clade
Clade HA
D.3.1
Clade NA
D.1
Sample details
Collection country
USA
Collection subdivision level 1
California
Collection date
2026-08-13
Isolate name
A/California/LACPHL-INF02832/2026
INSDC seg4
subtype_seg4
H1
INSDC seg6
subtype_seg6
N1
Alignment and QC
Length seg1
2052 (88.9%)
Total SNPs seg1
77
Total unknown nucs seg1
25
Length seg2
2191 (89.2%)
Total SNPs seg2
71
Total unknown nucs seg2
163
Length seg3
2123 (98.7%)
Total SNPs seg3
76
Length seg4
1685 (94.4%)
Total SNPs seg4
115
Total unknown nucs seg4
31
Length seg5
1358 (77.4%)
Total ambiguous nucs seg5
1
Total SNPs seg5
51
Total unknown nucs seg5
199
Length seg6
1313 (91.6%)
Total SNPs seg6
24
Length seg7
813 (82.5%)
Total ambiguous nucs seg7
2
Total SNPs seg7
26
Total unknown nucs seg7
1
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
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
T
336
G
A
342
G
G
363
A
G
375
A
A
441
G
G
583
A
C
600
A
C
619
T
C
666
T
Show more
seg2
A
159
G
G
168
A
G
180
A
C
192
T
T
207
A
T
210
C
T
222
C
G
225
A
T
228
C
C
297
T
C
447
T
T
450
C
G
461
A
T
474
C
A
510
G
G
598
A
G
678
A
C
684
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
G
423
A
G
477
A
C
486
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
A
233
G
C
281
A
C
293
G
C
318
T
G
322
A
G
360
A
G
409
A
G
416
A
A
429
G
Show more
seg5
C
141
A
C
171
T
T
177
C
C
180
T
A
181
G
T
228
C
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
G
546
A
G
549
A
A
570
T
Show more
seg6
A
160
C
C
301
T
T
323
C
C
452
A
T
512
C
G
607
A
A
785
G
T
799
C
C
809
T
A
818
G
C
893
T
G
905
A
G
914
T
A
1034
G
A
1049
G
C
1187
T
A
1193
G
T
1195
C
Show more
seg7
G
238
A
G
258
A
G
264
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
T
663
C
C
685
T
G
687
A
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:
G
155
E
HA1:
N
156
K
HA1:
L
161
I
HA1:
S
162
N
HA1:
K
163
Q
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:
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
NA
NA:
K
51
T
NA:
A
98
V
NA:
S
200
N
NA:
I
264
T
NA:
I
396
T
NA:
R
430
Q
NA:
V
453
M
NA:
K
469
N
NP
NP:
I
61
V
NP:
V
100
I
NP:
M
105
T
NP:
X
114
E
NP:
L
122
Q
NP:
V
217
I
NP:
V
425
I
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:
D
396
N
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:
I
364
L
PB1:
K
386
R
PB1:
I
397
M
PB1:
I
435
T
PB1:
P
454
S
PB1:
Q
584
K
PB1:
D
729
E
PB2
PB2:
T
76
S
PB2:
T
81
M
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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