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Influenza A/H1N1pdm
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GSD_0060JK5.1
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USA/GSD_0060JK5.1/2026-02-06
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
PZ147514.1.seg1/PZ147515.1.seg2/PZ147516.1.seg3/PZ147517.1.seg4/PZ147518.1.seg5/PZ147519.1.seg6/PZ147520.1.seg7/PZ147521.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2026-03-16 10:11:18 UTC
Date released
2026-03-16 13:37:42 UTC
Clade
Clade HA
D.3.1
Clade NA
D
Sample details
Collection country
USA
Collection subdivision level 1
California
Collection date
2026-02-06
Isolate name
A/California/LACPHL-INF02352/2026
Host
Host
Homo sapiens
INSDC
INSDC accession seg1
PZ147514.1
INSDC accession seg2
PZ147515.1
INSDC accession seg3
PZ147516.1
INSDC accession seg4
PZ147517.1
INSDC accession seg5
PZ147518.1
INSDC accession seg6
PZ147519.1
INSDC accession seg7
PZ147520.1
INSDC accession seg8
PZ147521.1
NCBI release date
2026-03-13
INSDC seg4
Subtype seg4
H1
INSDC seg6
Subtype seg6
N1
Alignment and QC
Length seg1
2280 (91.6%)
Total ambiguous nucs seg1
1
Total SNPs seg1
83
Total unknown nucs seg1
191
Length seg2
2274 (100%)
Total SNPs seg2
74
Length seg3
2151 (100%)
Total SNPs seg3
86
Length seg4
1701 (97.1%)
Total SNPs seg4
108
Length seg5
1497 (100%)
Total SNPs seg5
61
Length seg6
1410 (98.4%)
Total SNPs seg6
24
Length seg7
982 (100%)
Total SNPs seg7
31
Length seg8
863 (100%)
Total SNPs seg8
37
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
G
42
A
A
63
G
T
81
C
A
159
G
G
168
A
G
180
A
C
192
A
G
204
A
T
207
A
T
210
C
T
222
C
G
225
A
C
297
T
G
312
A
A
345
G
A
366
G
T
384
C
C
447
T
Show more
seg3
G
40
A
R
53
A
A
56
G
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
C
468
T
G
477
A
Show more
seg4
A
38
G
C
42
A
A
47
G
G
57
A
A
119
G
G
137
A
T
161
C
G
188
A
A
231
C
T
276
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
Show more
seg5
A
33
G
G
42
T
C
87
T
A
97
G
C
141
A
C
171
T
T
177
C
C
180
T
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
A
390
G
Show more
seg6
C
285
T
A
392
G
C
452
A
G
607
A
G
659
A
T
707
C
C
728
A
G
748
A
A
785
G
T
799
C
A
818
G
C
893
T
G
914
T
C
929
T
G
950
A
T
1016
C
A
1049
G
C
1169
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
633
A
Show more
seg8
C
6
A
C
42
T
C
54
T
T
99
C
C
108
A
T
159
C
G
163
A
C
192
T
C
204
T
A
226
T
A
238
G
G
250
A
C
264
T
C
268
A
C
285
T
C
315
T
A
367
G
A
375
T
Show more
Deletions
N/A
Insertions
N/A
Amino acid 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
HA1
HA1:
K
54
Q
HA1:
S
69
P
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
D
HA1:
K
142
R
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:
I
91
V
HA2:
S
124
R
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
NA
NA:
P
93
S
NA:
S
200
N
NA:
S
247
N
NA:
I
264
T
NA:
M
314
I
NA:
V
453
M
NA:
K
469
N
NEP
NEP:
D
2
E
NEP:
M
14
T
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:
D
2
E
NS1:
E
55
K
NS1:
T
76
S
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:
P
164
S
NS1:
V
178
I
NS1:
N
205
S
PA
PA:
V
14
I
PA:
X
18
E
PA:
K
19
R
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:
K
19
R
PA-X:
I
30
V
PA-X:
V
63
I
PA-X:
V
100
I
PA-X:
R
199
K
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:
K
757
R
PB2
PB2:
R
54
K
PB2:
T
76
S
PB2:
T
81
M
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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