GenSpectrum
Influenza A/H3N2
Influenza B/Victoria
Dengue 1
Dengue 2
Dengue 3
Dengue 4
Influenza A/H1N1pdm
Influenza A/H3N2
Influenza A/H5N1
Influenza A
Influenza B
RSV-A
RSV B
Browse
GenSpectrum
Browse
Docs
API docs
GS_00F3PR7.2
Version 2
GS_00F3PR7.1
Previous version
GS_00F3PR7.2
Latest version
All versions
Download
Download FASTA
Download metadata TSV
Display Name: USA/GS_00F3PR7.2/2025-07-10
A. P. Rothstein,
S. Collins,
G. Muir,
A. Simas,
B. Lu,
B. Cosca,
B. Girinathan,
P. Leeson,
A. M. Plocik &
B. Simen
Submission details
Submission ID
PX103416.1.seg1/PX103415.1.seg2/PX103414.1.seg3/PX103409.1.seg4/PX103412.1.seg5/PX103411.1.seg6/PX103410.1.seg7/PX103413.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-08-14 11:39:31 UTC
Date released
2025-08-16 02:59:36 UTC
Authors
Author affiliations
Ginkgo Bioworks, Ginkgo Biosecurity
Clade
Clade HA
3C.2a1b.2a.2a.3a.1
Clade NA
B.4.2
Alignment states and QC metrics seg1
Completeness seg1
98.89%
Length seg1
2315
Total ambiguous nucs seg1
0
Total deleted nucs seg1
0
Total frame shifts seg1
0
Total inserted nucs seg1
0
Total SNPs seg1
103
Total unknown nucs seg1
0
Alignment states and QC metrics seg2
Completeness seg2
98.93%
Length seg2
2316
Total ambiguous nucs seg2
0
Total deleted nucs seg2
0
Total frame shifts seg2
0
Total inserted nucs seg2
0
Total SNPs seg2
109
Total unknown nucs seg2
0
Alignment states and QC metrics seg3
Completeness seg3
98.88%
Length seg3
2209
Total ambiguous nucs seg3
0
Total deleted nucs seg3
0
Total frame shifts seg3
0
Total inserted nucs seg3
1
Total SNPs seg3
97
Total unknown nucs seg3
0
Alignment states and QC metrics seg4
Completeness seg4
100.00%
Length seg4
1737
Total ambiguous nucs seg4
0
Total deleted nucs seg4
0
Total frame shifts seg4
0
Total inserted nucs seg4
0
Total SNPs seg4
118
Total unknown nucs seg4
0
Alignment states and QC metrics seg5
Completeness seg5
98.47%
Length seg5
1541
Total ambiguous nucs seg5
0
Total deleted nucs seg5
1
Total frame shifts seg5
0
Total inserted nucs seg5
0
Total SNPs seg5
54
Total unknown nucs seg5
0
Alignment states and QC metrics seg6
Completeness seg6
100.00%
Length seg6
1441
Total ambiguous nucs seg6
0
Total deleted nucs seg6
0
Total frame shifts seg6
0
Total inserted nucs seg6
5
Total SNPs seg6
74
Total unknown nucs seg6
0
Alignment states and QC metrics seg7
Completeness seg7
97.76%
Length seg7
1004
Total ambiguous nucs seg7
0
Total deleted nucs seg7
0
Total frame shifts seg7
0
Total inserted nucs seg7
0
Total SNPs seg7
27
Total unknown nucs seg7
0
Alignment states and QC metrics seg8
Completeness seg8
97.64%
Length seg8
869
Total ambiguous nucs seg8
0
Total deleted nucs seg8
0
Total frame shifts seg8
0
Total inserted nucs seg8
0
Total SNPs seg8
29
Total unknown nucs seg8
0
Sample details
Collection country
USA
Collection subdivision level 1
California
Collection date
2025-07-10
Isolate name
A/California/GKISBBBG79914/2025
Host
Host name scientific
Homo sapiens
Host taxon id
9606
INSDC
INSDC accession seg1
PX103416.1
INSDC accession seg2
PX103415.1
INSDC accession seg3
PX103414.1
INSDC accession seg4
PX103409.1
INSDC accession seg5
PX103412.1
INSDC accession seg6
PX103411.1
INSDC accession seg7
PX103410.1
INSDC accession seg8
PX103413.1
NCBI release date
2025-08-08
INSDC seg4
Subtype seg4
H3
INSDC seg6
Subtype seg6
N2
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
seg1:
T
27
C
seg1:
C
54
T
seg1:
G
57
A
seg1:
T
75
C
seg1:
G
87
A
seg1:
C
192
T
seg1:
C
198
T
seg1:
G
231
A
seg1:
A
235
C
seg1:
T
255
C
seg1:
A
282
G
seg1:
C
289
A
seg1:
A
330
G
seg1:
A
336
G
seg1:
G
343
A
seg1:
G
347
A
seg1:
A
369
G
seg1:
G
375
A
Show more
seg2
seg2:
C
46
T
seg2:
G
57
A
seg2:
C
84
A
seg2:
A
129
G
seg2:
A
132
T
seg2:
A
135
G
seg2:
C
141
T
seg2:
C
153
T
seg2:
T
171
C
seg2:
A
179
G
seg2:
G
180
A
seg2:
A
213
T
seg2:
A
219
G
seg2:
G
258
A
seg2:
C
306
T
seg2:
G
336
A
seg2:
A
342
C
seg2:
T
362
C
Show more
seg3
seg3:
G
22
A
seg3:
A
99
G
seg3:
A
120
C
seg3:
C
144
T
seg3:
A
156
G
seg3:
T
177
C
seg3:
A
201
C
seg3:
G
210
A
seg3:
T
222
C
seg3:
G
243
A
seg3:
A
270
G
seg3:
G
320
A
seg3:
A
324
T
seg3:
A
333
G
seg3:
C
340
T
seg3:
A
342
G
seg3:
A
345
G
seg3:
G
363
A
Show more
seg4
seg4:
A
24
G
seg4:
T
42
A
seg4:
G
56
T
seg4:
A
71
G
seg4:
C
72
A
seg4:
T
74
A
seg4:
C
77
T
seg4:
C
89
T
seg4:
A
125
G
seg4:
G
155
A
seg4:
A
163
G
seg4:
A
170
G
seg4:
C
189
T
seg4:
G
199
A
seg4:
C
203
A
seg4:
C
208
T
seg4:
G
213
A
seg4:
G
214
A
Show more
seg5
seg5:
A
16
G
seg5:
C
29
T
seg5:
A
40
C
seg5:
G
96
A
seg5:
G
207
A
seg5:
G
219
A
seg5:
C
249
T
seg5:
A
345
C
seg5:
G
390
A
seg5:
G
432
T
seg5:
G
436
T
seg5:
T
447
C
seg5:
A
451
C
seg5:
C
459
T
seg5:
G
492
A
seg5:
G
495
A
seg5:
A
513
G
seg5:
T
525
C
Show more
seg6
seg6:
C
51
A
seg6:
A
60
G
seg6:
T
88
C
seg6:
C
144
T
seg6:
T
162
C
seg6:
C
205
T
seg6:
T
245
C
seg6:
G
270
A
seg6:
A
280
G
seg6:
A
281
G
seg6:
T
303
C
seg6:
C
345
A
seg6:
C
380
T
seg6:
G
408
A
seg6:
C
421
A
seg6:
C
429
T
seg6:
G
442
A
seg6:
G
459
A
Show more
seg7
seg7:
A
37
T
seg7:
C
188
T
seg7:
G
205
A
seg7:
G
214
T
seg7:
A
241
G
seg7:
T
292
C
seg7:
T
298
C
seg7:
C
400
A
seg7:
A
466
G
seg7:
A
481
G
seg7:
C
493
T
seg7:
A
517
G
seg7:
T
589
A
seg7:
A
637
G
seg7:
A
658
G
seg7:
G
680
A
seg7:
C
697
T
seg7:
T
703
C
Show more
seg8
seg8:
C
53
T
seg8:
G
102
A
seg8:
A
104
C
seg8:
C
116
T
seg8:
C
123
A
seg8:
T
125
C
seg8:
G
192
T
seg8:
T
205
C
seg8:
T
218
C
seg8:
A
238
G
seg8:
T
271
C
seg8:
C
275
G
seg8:
C
302
T
seg8:
G
398
A
seg8:
G
416
A
seg8:
G
430
A
seg8:
A
442
G
seg8:
A
464
G
Show more
Deletions
seg5:1543
Insertions
ins_seg6:0:AGTA, ins_seg6:1436:T, ins_seg3:2211: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:
Q
33
R
HA1:
S
45
N
HA1:
T
48
I
HA1:
G
50
K
HA1:
D
53
N
HA1:
E
62
G
HA1:
K
83
E
HA1:
K
92
R
HA1:
Y
94
N
HA1:
N
96
S
HA1:
D
104
N
HA1:
N
121
K
HA1:
T
131
K
HA1:
T
135
A
HA1:
S
138
A
HA1:
R
142
G
HA1:
N
144
S
Show more
HA2
HA2:
I
32
R
HA2:
N
46
D
HA2:
N
49
S
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:
P
25
L
M2:
S
31
N
M2:
L
54
F
M2:
N
82
S
NA
NA:
L
81
P
NA:
N
93
G
NA:
P
126
L
NA:
L
140
I
NA:
D
147
N
NA:
V
194
I
NA:
I
215
V
NA:
K
220
N
NA:
E
221
D
NA:
S
245
N
NA:
S
247
T
NA:
T
267
K
NA:
L
285
P
NA:
V
303
I
NA:
Y
310
H
NA:
S
315
R
NA:
N
329
S
NA:
D
339
N
Show more
NP
NP:
A
131
S
NP:
I
136
L
NP:
V
197
I
NP:
R
236
K
NP:
S
359
L
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:
K
221
E
NS1:
K
229
E
PA
PA:
E
59
D
PA:
G
99
E
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
G
PA:
N
409
S
PA:
I
421
V
PA:
Y
437
H
PA:
I
602
V
PA:
K
605
R
Show more
PA-X
PA-X:
E
59
D
PA-X:
G
99
E
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:
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:
S
12
L
PB1-F2:
I
18
T
PB1-F2:
R
21
E
PB1-F2:
H
32
L
PB1-F2:
N
34
S
PB1-F2:
S
47
N
PB1-F2:
S
63
F
PB1-F2:
R
73
K
PB1-F2:
H
75
P
PB1-F2:
S
82
P
PB1-F2:
W
88
*
PB2
PB2:
A
106
T
PB2:
S
107
N
PB2:
I
147
T
PB2:
E
249
G
PB2:
K
340
R
PB2:
K
353
R
PB2:
Q
392
H
PB2:
I
451
V
PB2:
I
588
T
PB2:
T
613
A
SigPep
SigPep:
T
3
A
SigPep:
Y
9
N
Deletions
None
Insertions
None
Load sequences