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GS_00GD2HP.3
Version 3
GS_00GD2HP.1
Previous version
GS_00GD2HP.2
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GS_00GD2HP.3
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USA/GS_00GD2HP.3/2025-10-24
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
PX637970.1.seg1/PX637971.1.seg2/PX637972.1.seg3/PX637973.1.seg4/PX637974.1.seg5/PX637975.1.seg6/PX637976.1.seg7/PX637977.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2026-01-19 09:53:38 UTC
Date released
2026-01-19 23:09:32 UTC
Clade
Clade HA
D.3.1
Clade NA
D
Sample details
Collection country
USA
Collection subdivision level 1
California
Collection date
2025-10-24
Isolate name
A/California/LACPHL-INF02060/2025
Host
Host
Homo sapiens
INSDC
INSDC accession seg1
PX637970.1
INSDC accession seg2
PX637971.1
INSDC accession seg3
PX637972.1
INSDC accession seg4
PX637973.1
INSDC accession seg5
PX637974.1
INSDC accession seg6
PX637975.1
INSDC accession seg7
PX637976.1
INSDC accession seg8
PX637977.1
NCBI release date
2025-12-01
INSDC seg4
Subtype seg4
H1
INSDC seg6
Subtype seg6
N1
Alignment and QC
Length seg1
2280 (65.1%)
Total SNPs seg1
54
Total unknown nucs seg1
795
Length seg2
2274 (86.1%)
Total SNPs seg2
71
Total unknown nucs seg2
316
Length seg3
2151 (73.6%)
Total SNPs seg3
61
Total unknown nucs seg3
568
Length seg4
1701 (97%)
Total ambiguous nucs seg4
1
Total SNPs seg4
109
Length seg5
1497 (100%)
Total SNPs seg5
57
Length seg6
1410 (98.4%)
Total SNPs seg6
24
Length seg7
982 (100%)
Total SNPs seg7
26
Length seg8
864 (100%)
Total inserted nucs seg8
1
Total SNPs seg8
35
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
seg1:
A
18
G
seg1:
A
90
C
seg1:
A
96
G
seg1:
A
108
G
seg1:
A
132
G
seg1:
A
138
G
seg1:
G
161
A
seg1:
A
174
G
seg1:
G
198
A
seg1:
T
201
C
seg1:
A
225
G
seg1:
C
242
T
seg1:
A
243
G
seg1:
C
285
A
seg1:
A
291
G
seg1:
G
375
A
seg1:
A
441
G
seg1:
G
583
A
Show more
seg2
seg2:
G
42
A
seg2:
A
63
G
seg2:
T
81
C
seg2:
A
159
G
seg2:
G
168
A
seg2:
G
180
A
seg2:
C
192
A
seg2:
G
204
A
seg2:
T
207
A
seg2:
T
210
C
seg2:
T
222
C
seg2:
G
225
A
seg2:
C
297
T
seg2:
G
312
A
seg2:
A
345
G
seg2:
A
366
G
seg2:
T
384
C
seg2:
C
447
T
Show more
seg3
seg3:
G
40
A
seg3:
R
53
A
seg3:
T
81
C
seg3:
G
84
C
seg3:
A
88
G
seg3:
C
90
T
seg3:
C
99
T
seg3:
A
114
T
seg3:
C
153
T
seg3:
C
162
T
seg3:
C
165
T
seg3:
G
187
A
seg3:
G
204
A
seg3:
G
298
A
seg3:
G
423
A
seg3:
C
468
T
seg3:
G
477
A
seg3:
G
498
A
Show more
seg4
seg4:
A
38
G
seg4:
C
42
A
seg4:
A
47
G
seg4:
G
57
A
seg4:
A
119
G
seg4:
T
161
C
seg4:
C
164
T
seg4:
G
188
A
seg4:
T
230
C
seg4:
A
231
C
seg4:
C
281
A
seg4:
C
293
G
seg4:
C
318
T
seg4:
G
322
A
seg4:
G
360
A
seg4:
G
409
A
seg4:
G
416
A
seg4:
A
429
G
Show more
seg5
seg5:
G
42
T
seg5:
C
87
T
seg5:
A
97
G
seg5:
C
132
T
seg5:
C
141
A
seg5:
C
171
T
seg5:
T
177
C
seg5:
C
180
T
seg5:
C
249
A
seg5:
A
288
C
seg5:
G
298
A
seg5:
G
309
A
seg5:
T
314
C
seg5:
G
315
A
seg5:
R
341
A
seg5:
T
365
A
seg5:
A
390
G
seg5:
T
402
C
Show more
seg6
seg6:
C
285
T
seg6:
A
392
G
seg6:
T
413
C
seg6:
C
452
A
seg6:
G
607
A
seg6:
G
659
A
seg6:
C
728
A
seg6:
G
748
A
seg6:
A
785
G
seg6:
T
799
C
seg6:
A
818
G
seg6:
C
893
T
seg6:
G
914
T
seg6:
C
929
T
seg6:
G
950
A
seg6:
T
1016
C
seg6:
T
1028
C
seg6:
A
1049
G
Show more
seg7
seg7:
C
42
A
seg7:
G
75
A
seg7:
C
124
A
seg7:
G
238
A
seg7:
G
258
A
seg7:
A
293
G
seg7:
G
306
A
seg7:
G
339
A
seg7:
G
342
A
seg7:
C
375
A
seg7:
C
390
T
seg7:
T
432
C
seg7:
G
441
T
seg7:
G
492
A
seg7:
C
507
A
seg7:
A
574
G
seg7:
C
622
A
seg7:
G
660
A
Show more
seg8
seg8:
C
6
A
seg8:
C
42
T
seg8:
C
54
T
seg8:
T
99
C
seg8:
C
108
A
seg8:
T
159
C
seg8:
G
163
A
seg8:
C
192
T
seg8:
C
204
T
seg8:
A
226
T
seg8:
A
238
G
seg8:
G
250
A
seg8:
C
264
T
seg8:
C
268
A
seg8:
C
315
T
seg8:
A
367
G
seg8:
A
375
T
seg8:
A
391
G
Show more
Deletions
None
Insertions
ins_seg8:842: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
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
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:
D
21
G
M2:
S
23
N
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:
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:
N
321
K
PA:
I
330
V
PA:
R
362
K
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
PB1
PB1:
G
154
D
PB1:
K
279
Q
PB1:
K
386
R
PB1:
I
397
M
PB1:
I
435
T
PB1:
K
757
R
PB2
PB2:
R
54
K
PB2:
M
66
I
PB2:
T
81
M
PB2:
D
195
N
PB2:
K
482
R
PB2:
V
667
I
PB2:
V
731
I
SigPep
SigPep:
L
8
M
SigPep:
A
13
T
Deletions
None
Insertions
None
Load sequences