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Influenza A/H1N1pdm
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Dengue 4
Influenza A/H1N1pdm
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RSV-A
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GS_006VLVS.1
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Display Name: USA/GS_006VLVS.1/2025-08-10
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
PX423057.1.seg3/PX423053.1.seg4/PX423056.1.seg5/PX423055.1.seg6/PX423054.1.seg7
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-10-08 14:41:09 UTC
Date released
2025-10-09 00:13:29 UTC
Authors
Author affiliations
Ginkgo Bioworks, Ginkgo Biosecurity
Clade
Clade HA
6B.1A.5a.2a.1
Clade NA
D.1
Alignment states and QC metrics seg3
Completeness seg3
100.00%
Length seg3
2208
Total ambiguous nucs seg3
0
Total deleted nucs seg3
0
Total frame shifts seg3
0
Total inserted nucs seg3
57
Total SNPs seg3
74
Total unknown nucs seg3
0
Alignment states and QC metrics seg4
Completeness seg4
100.00%
Length seg4
1752
Total ambiguous nucs seg4
0
Total deleted nucs seg4
0
Total frame shifts seg4
0
Total inserted nucs seg4
0
Total SNPs seg4
111
Total unknown nucs seg4
0
Alignment states and QC metrics seg5
Completeness seg5
100.00%
Length seg5
1540
Total ambiguous nucs seg5
0
Total deleted nucs seg5
0
Total frame shifts seg5
0
Total inserted nucs seg5
43
Total SNPs seg5
61
Total unknown nucs seg5
0
Alignment states and QC metrics seg6
Completeness seg6
100.00%
Length seg6
1432
Total ambiguous nucs seg6
0
Total deleted nucs seg6
1
Total frame shifts seg6
0
Total inserted nucs seg6
0
Total SNPs seg6
18
Total unknown nucs seg6
0
Alignment states and QC metrics seg7
Completeness seg7
100.00%
Length seg7
1002
Total ambiguous nucs seg7
0
Total deleted nucs seg7
0
Total frame shifts seg7
0
Total inserted nucs seg7
20
Total SNPs seg7
29
Total unknown nucs seg7
0
Sample details
Collection country
USA
Collection subdivision level 1
New York
Collection date
2025-08-10
Isolate name
A/New York/GKISBBBH32102/2025
Host
Host name scientific
Homo sapiens
Host taxon id
9606
INSDC
INSDC accession seg3
PX423057.1
INSDC accession seg4
PX423053.1
INSDC accession seg5
PX423056.1
INSDC accession seg6
PX423055.1
INSDC accession seg7
PX423054.1
NCBI release date
2025-09-26
INSDC seg4
Subtype seg4
H1
INSDC seg6
Subtype seg6
N1
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
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:
G
477
T
seg3:
G
498
A
seg3:
G
504
A
Show more
seg4
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:
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
380
A
seg4:
G
416
A
seg4:
A
429
G
seg4:
C
443
T
seg4:
A
456
G
Show more
seg5
seg5:
A
33
G
seg5:
G
42
T
seg5:
C
87
T
seg5:
A
97
G
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:
C
303
T
seg5:
G
309
A
seg5:
T
314
C
seg5:
G
315
A
seg5:
R
341
A
seg5:
T
365
A
seg5:
A
390
G
Show more
seg6
seg6:
C
227
T
seg6:
C
301
T
seg6:
C
452
A
seg6:
G
607
A
seg6:
G
754
A
seg6:
A
785
G
seg6:
T
799
C
seg6:
A
818
G
seg6:
C
893
T
seg6:
G
914
T
seg6:
A
1049
G
seg6:
C
1187
T
seg6:
A
1193
G
seg6:
A
1208
G
seg6:
A
1304
G
seg6:
G
1365
A
seg6:
T
1403
C
seg6:
G
1415
T
seg7
seg7:
G
48
A
seg7:
G
75
A
seg7:
T
123
C
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:
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
Deletions
seg6:1426
Insertions
ins_seg3:0:TACTGATCCAAA, ins_seg3:2151:TTGTGGCAATGCTACTATTTGCTATCCATATTGTCCAAAAAAGTA, ins_seg5:0:GTAGATAATCACTCAATGAGTGACATCGAAGCC, ins_seg5:1497:AGAAAAATAC, ins_seg7:0:TAGATGTTTAAAG, ins_seg7:982:AAAACTA
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:
T
120
A
HA1:
N
129
D
HA1:
K
130
N
HA1:
P
137
S
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
HA1:
S
185
I
HA1:
A
186
T
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
R
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:
A
98
V
NA:
S
200
N
NA:
G
249
E
NA:
I
264
T
NA:
V
453
M
NA:
K
469
N
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
PA
PA:
V
14
I
PA:
X
18
E
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:
I
30
V
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:
R
221
Q
PA-X:
L
229
S
SigPep
SigPep:
L
8
M
SigPep:
A
13
T
Deletions
None
Insertions
None
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