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Organisms
Influenza A/H1N1pdm
GenSpectrum
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Dengue 1
Dengue 2
Dengue 3
Dengue 4
Influenza A
Influenza A/H1N1pdm
Influenza A/H3N2
Influenza A/H5N1
Influenza B
Influenza B/Victoria
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Influenza A/H1N1pdm
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Browse data
GS_00J5GJM.1
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Download FASTA
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USA/GS_00J5GJM.1/2026-07-10
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
PZ864530.1.seg1/PZ864531.1.seg2/PZ864532.1.seg3/PZ864533.1.seg4/PZ864534.1.seg5/PZ864535.1.seg6/PZ864536.1.seg7/PZ864537.1.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
INSDC
bioprojectAccession
PRJNA967387
biosampleAccession
SAMN62518168
INSDC accession seg1
PZ864530.1
INSDC accession seg2
PZ864531.1
INSDC accession seg3
PZ864532.1
INSDC accession seg4
PZ864533.1
INSDC accession seg5
PZ864534.1
INSDC accession seg6
PZ864535.1
INSDC accession seg7
PZ864536.1
INSDC accession seg8
PZ864537.1
NCBI release date
2026-08-21
SRA run accession
SRR40236252
Clade
Clade HA
D.3.1
Clade NA
D.1
Sample details
Collection country
USA
Collection subdivision level 1
California
Collection date
2026-07-10
Isolate name
A/California/LACPHL-INF02820/2026
INSDC seg4
subtype_seg4
H1
INSDC seg6
subtype_seg6
N1
Alignment and QC
Length seg1
2018 (88.5%)
Total SNPs seg1
75
Length seg2
1904 (78.3%)
Total SNPs seg2
58
Total unknown nucs seg2
123
Length seg3
1981 (92.1%)
Total SNPs seg3
75
Length seg4
1581 (90.2%)
Total SNPs seg4
106
Length seg5
1494 (99.8%)
Total SNPs seg5
62
Length seg6
1367 (95.4%)
Total SNPs seg6
23
Length seg7
939 (95.6%)
Total SNPs seg7
33
Length seg8
806 (93.4%)
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
C
285
A
A
291
G
C
309
T
G
363
A
G
375
A
C
402
T
A
441
G
A
560
G
G
576
A
G
583
A
C
600
A
C
619
T
A
657
C
C
666
T
A
669
G
G
673
A
A
690
G
A
702
G
Show more
seg2
G
354
A
A
510
G
G
598
A
A
630
G
G
705
A
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
Show more
seg3
G
187
A
G
204
A
G
298
A
A
363
G
G
423
A
G
477
A
G
498
A
G
504
A
G
597
A
A
612
G
G
618
A
T
630
C
G
663
A
C
670
T
A
673
T
T
687
C
G
785
A
G
810
A
Show more
seg4
T
161
C
C
164
T
G
188
A
G
209
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
C
480
T
T
485
C
Show more
seg5
G
42
T
G
54
A
C
87
T
A
97
G
C
141
A
C
171
T
T
177
C
C
180
T
A
240
G
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
Show more
seg6
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
G
881
T
C
893
T
G
905
T
G
914
T
A
1049
G
C
1187
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
T
618
C
C
622
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:
K
230
R
M2
M2:
R
18
K
M2:
D
21
G
M2:
S
23
N
M2:
I
28
T
M2:
D
88
G
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:
V
100
I
NP:
M
105
T
NP:
X
114
E
NP:
L
122
Q
NP:
I
136
L
NP:
V
217
I
NP:
V
425
I
NP:
S
498
N
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
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:
L
210
P
PA-X:
R
221
Q
PA-X:
L
229
S
PB1
PB1:
V
200
I
PB1:
K
386
R
PB1:
I
397
M
PB1:
I
435
T
PB1:
P
454
S
PB1:
I
667
V
PB1:
D
729
E
PB2
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
Deletions
N/A
Insertions
N/A
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