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GS_00HML2J.1
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Download FASTA
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USA/GS_00HML2J.1/2026-03-10
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
PZ251751.1.seg1/PZ251752.1.seg2/PZ251753.1.seg3/PZ251754.1.seg4/PZ251755.1.seg5/PZ251756.1.seg6/PZ251757.1.seg7/PZ251758.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2026-04-08 04:30:57 UTC
Date released
2026-04-08 04:32:19 UTC
Clade
Clade HA
J.2.3
Clade NA
None
Sample details
Collection country
USA
Collection subdivision level 1
California
Collection date
2026-03-10
Isolate name
A/California/LACPHL-INF02479/2026
Host
Host
Homo sapiens
INSDC
INSDC accession seg1
PZ251751.1
INSDC accession seg2
PZ251752.1
INSDC accession seg3
PZ251753.1
INSDC accession seg4
PZ251754.1
INSDC accession seg5
PZ251755.1
INSDC accession seg6
PZ251756.1
INSDC accession seg7
PZ251757.1
INSDC accession seg8
PZ251758.1
NCBI release date
2026-04-07
INSDC seg4
Subtype seg4
H3
INSDC seg6
Subtype seg6
N2
Alignment and QC
Length seg1
2280 (97.4%)
Total SNPs seg1
99
Length seg2
2274 (97.1%)
Total SNPs seg2
117
Length seg3
2151 (96.3%)
Total SNPs seg3
82
Length seg4
1701 (97.9%)
Total SNPs seg4
120
Length seg5
1497 (95.6%)
Total SNPs seg5
49
Length seg6
1410 (98%)
Total SNPs seg6
17
Length seg7
982 (95.6%)
Total SNPs seg7
28
Length seg8
863 (97%)
Total SNPs seg8
26
Nucleotide mutations
Mutations called relative to the
NC_007373.1
,
NC_007372.1
,
NC_007371.1
,
CY163680.1
,
NC_007369.1
,
CY114383.1
,
NC_007367.1
&
NC_007370.1
references
Substitutions
seg1
C
54
T
G
57
A
T
75
C
C
192
T
C
198
T
T
255
C
A
282
G
C
289
A
A
330
G
A
336
G
G
343
A
G
347
A
A
369
G
G
375
A
A
402
G
T
426
C
T
438
C
G
447
A
Show more
seg2
C
46
T
G
57
A
C
84
A
A
129
G
A
132
T
A
135
G
C
141
T
T
171
C
A
174
G
A
179
G
G
180
A
C
191
T
A
213
T
A
219
G
G
249
A
G
258
A
C
288
T
T
297
C
Show more
seg3
A
99
G
A
120
C
C
144
T
A
156
G
T
177
C
T
222
C
G
243
A
A
324
T
A
333
G
C
340
T
A
342
G
A
345
G
G
363
A
T
369
C
A
396
G
A
435
G
C
450
A
C
465
T
Show more
seg4
A
24
G
T
42
A
G
56
T
C
72
A
T
74
A
C
77
T
C
89
T
C
126
T
G
155
A
A
163
G
C
189
T
G
199
A
C
203
A
C
208
T
G
213
A
G
214
A
G
222
A
G
226
A
Show more
seg5
G
96
A
G
207
A
G
219
A
C
249
T
T
255
C
A
345
C
A
351
G
G
390
A
G
432
T
G
436
T
T
447
C
A
451
C
G
492
A
A
513
G
T
525
C
T
558
G
A
582
C
G
634
A
Show more
seg6
T
19
C
A
64
G
A
77
T
A
181
T
C
349
A
G
456
A
T
556
C
C
682
T
A
739
T
A
791
G
A
936
G
T
1015
C
G
1043
A
C
1163
T
G
1206
A
G
1342
A
T
1413
C
seg7
A
37
T
C
67
A
G
100
A
C
188
T
G
205
A
G
214
T
A
241
G
T
292
C
T
298
C
G
427
A
A
466
G
A
481
G
C
493
T
A
517
G
A
637
G
A
658
G
G
680
A
C
697
T
Show more
seg8
C
53
T
G
102
A
A
104
C
C
116
T
C
123
A
T
125
C
G
192
T
T
205
C
T
218
C
A
238
G
T
271
C
C
275
G
G
398
A
G
416
A
G
430
A
A
442
G
A
464
G
T
513
C
Show more
Deletions
N/A
Insertions
N/A
Amino acid mutations
Mutations called relative to the
NC_007373.1
,
NC_007372.1
,
NC_007371.1
,
CY163680.1
,
NC_007369.1
,
CY114383.1
,
NC_007367.1
&
NC_007370.1
references
Substitutions
HA1
HA1:
L
3
I
HA1:
P
21
S
HA1:
Q
33
R
HA1:
S
45
N
HA1:
T
48
I
HA1:
G
50
K
HA1:
D
53
N
HA1:
S
54
N
HA1:
I
58
V
HA1:
E
62
G
HA1:
G
78
S
HA1:
K
83
E
HA1:
K
92
R
HA1:
Y
94
N
HA1:
N
96
S
HA1:
N
121
K
HA1:
T
131
K
HA1:
S
138
A
Show more
HA2
HA2:
I
32
R
HA2:
N
46
D
HA2:
I
77
V
HA2:
R
121
K
HA2:
G
155
E
HA2:
D
160
N
HA2:
I
193
M
HA2:
V
200
I
M1
M1:
V
219
I
M2
M2:
E
14
G
M2:
P
25
L
M2:
S
31
N
M2:
I
32
V
M2:
L
54
F
M2:
N
82
S
NA
NA:
M
24
L
NA:
R
150
H
NA:
I
262
V
NA:
H
310
R
NA:
D
346
N
NA:
P
386
S
NA:
R
400
K
NA:
I
469
T
NP
NP:
A
131
S
NP:
I
136
L
NP:
V
197
I
NP:
R
236
K
NP:
T
472
A
NS1
NS1:
E
26
N
NS1:
L
33
I
NS1:
A
56
S
NS1:
V
60
A
NS1:
E
71
G
NS1:
V
82
A
NS1:
M
124
I
NS1:
S
135
N
NS1:
D
139
G
NS1:
I
171
V
NS1:
K
221
E
NS1:
K
229
E
PA
PA:
N
142
K
PA:
I
155
M
PA:
K
158
R
PA:
S
208
T
PA:
K
222
N
PA:
K
256
Q
PA:
N
272
S
PA:
I
311
M
PA:
Y
321
C
PA:
D
382
E
PA:
D
396
E
PA:
N
409
S
PA:
I
421
V
PA:
Y
437
H
PA:
I
602
V
PA:
K
605
R
PA:
V
668
I
PA:
N
675
K
PA-X
PA-X:
N
142
K
PA-X:
I
155
M
PA-X:
K
158
R
PA-X:
E
209
G
PA-X:
V
212
A
PA-X:
N
222
T
PB1
PB1:
K
52
R
PB1:
T
56
M
PB1:
V
113
A
PB1:
V
423
I
PB1:
L
576
I
PB1:
R
586
K
PB1:
A
587
T
PB1:
E
618
D
PB1:
N
667
I
PB1:
*
758
Q
PB1-F2
PB1-F2:
E
4
G
PB1-F2:
Q
5
L
PB1-F2:
D
6
G
PB1-F2:
P
8
L
PB1-F2:
I
18
T
PB1-F2:
Q
19
R
PB1-F2:
R
21
E
PB1-F2:
R
25
*
PB1-F2:
H
32
L
PB1-F2:
N
34
S
PB1-F2:
R
44
K
PB1-F2:
S
47
N
PB1-F2:
S
57
F
PB1-F2:
L
60
P
PB1-F2:
S
63
F
PB1-F2:
R
73
K
PB1-F2:
H
75
P
PB1-F2:
S
82
P
PB1-F2:
K
85
R
PB1-F2:
W
88
*
PB2
PB2:
A
106
T
PB2:
S
107
N
PB2:
I
147
T
PB2:
E
249
G
PB2:
T
292
A
PB2:
K
340
R
PB2:
K
353
R
PB2:
I
588
T
PB2:
T
613
A
SigPep
SigPep:
T
3
A
SigPep:
Y
9
N
Deletions
N/A
Insertions
N/A
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