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Influenza B/Victoria
Influenza B/Victoria
Influenza A/H1N1pdm
Influenza A/H3N2
Influenza A/H5N1
Influenza A
Influenza B
RSV-A
RSV B
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GS_001HK37.1
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Display Name: USA/GS_001HK37.1/2025-01-27
Steel,
J.; Kirby,
M.; Garten,
R.; Davis,
T.; Dugan,
V.
Submission details
Submission ID
PV348989.1.seg4/PV348990.1.seg6/PV348991.1.seg7/PV348992.1.seg8
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-04-03 07:40:11 UTC
Date released
2025-04-03 08:01:42 UTC
Authors
Author affiliations
Centers for Disease Control and Prevention, Influenza Division
INSDC
Bioproject accession
PRJNA998882
INSDC accession seg4
PV348989.1
INSDC accession seg6
PV348990.1
INSDC accession seg7
PV348991.1
INSDC accession seg8
PV348992.1
NCBI release date
2025-03-20
Clade
Clade HA
V1A.3a.2
Clade NA
B.7
Alignment states and QC metrics seg4
Completeness seg4
98.46%
Length seg4
1847
Total ambiguous nucs seg4
0
Total deleted nucs seg4
9
Total frame shifts seg4
0
Total inserted nucs seg4
0
Total SNPs seg4
57
Total unknown nucs seg4
0
Alignment states and QC metrics seg6
Completeness seg6
100.00%
Length seg6
1526
Total ambiguous nucs seg6
0
Total deleted nucs seg6
0
Total frame shifts seg6
0
Total inserted nucs seg6
125
Total SNPs seg6
36
Total unknown nucs seg6
0
Alignment states and QC metrics seg7
Completeness seg7
100.00%
Length seg7
1154
Total ambiguous nucs seg7
0
Total deleted nucs seg7
0
Total frame shifts seg7
0
Total inserted nucs seg7
7
Total SNPs seg7
19
Total unknown nucs seg7
0
Alignment states and QC metrics seg8
Completeness seg8
99.62%
Length seg8
1066
Total ambiguous nucs seg8
0
Total deleted nucs seg8
0
Total frame shifts seg8
0
Total inserted nucs seg8
4
Total SNPs seg8
21
Total unknown nucs seg8
0
Sample details
Collection country
USA
Collection subdivision level 1
California
Collection date
2025-01-27
Isolate name
EPI_ISL_19759208
Host
Host name scientific
Homo sapiens
Host taxon id
9606
INSDC seg4
Lineage seg4
vic
Nucleotide mutations
Mutations called relative to the
CY115157.1
,
CY115158.1
,
CY115156.1
,
KX058884.1
,
CY115154.1
,
CY073894.1
,
CY115152.1
&
CY115155.1
references
Substitutions
seg4
seg4:
G
39
T
seg4:
G
144
A
seg4:
C
252
A
seg4:
G
267
A
seg4:
C
270
T
seg4:
G
297
A
seg4:
G
312
T
seg4:
A
318
G
seg4:
A
351
G
seg4:
C
375
T
seg4:
C
378
T
seg4:
C
411
A
seg4:
A
427
G
seg4:
C
441
T
seg4:
T
444
C
seg4:
G
457
A
seg4:
G
460
A
seg4:
A
463
G
Show more
seg6
seg6:
T
9
C
seg6:
C
125
A
seg6:
T
155
C
seg6:
A
206
C
seg6:
T
212
C
seg6:
G
279
A
seg6:
G
348
A
seg6:
A
358
G
seg6:
C
394
T
seg6:
C
399
T
seg6:
C
429
T
seg6:
G
462
A
seg6:
A
504
G
seg6:
C
519
T
seg6:
A
660
C
seg6:
T
714
A
seg6:
T
735
C
seg6:
C
849
T
Show more
seg7
seg7:
C
33
T
seg7:
C
46
T
seg7:
A
83
G
seg7:
T
125
A
seg7:
A
143
G
seg7:
T
185
C
seg7:
G
316
A
seg7:
A
419
G
seg7:
A
452
G
seg7:
G
482
A
seg7:
G
500
T
seg7:
G
521
A
seg7:
G
536
A
seg7:
A
566
G
seg7:
C
656
T
seg7:
C
802
T
seg7:
A
919
G
seg7:
A
967
G
seg7:
C
997
T
seg8
seg8:
G
6
A
seg8:
G
26
A
seg8:
A
118
G
seg8:
T
163
C
seg8:
G
190
A
seg8:
T
341
C
seg8:
A
352
C
seg8:
T
391
C
seg8:
C
419
T
seg8:
G
478
A
seg8:
G
573
A
seg8:
C
604
T
seg8:
A
610
T
seg8:
C
632
T
seg8:
G
661
A
seg8:
C
666
T
seg8:
T
775
C
seg8:
G
818
A
Show more
Deletions
seg4:562-570
Insertions
ins_seg8:1066:TAAA, ins_seg7:0:TCTTA, ins_seg7:1147:AA, ins_seg6:0:TTCTCAAAACTGAAGCAAATAGGCCAAAAAATGAACA, ins_seg6:1401:TGGGGGAGTGGTTAAGTCTGTTCTAAACCCTTTGTTCCTATTTTATTTGAACAATTGTCCTTACTAAACTTAATTGTTTCTGAAAAAT
Amino acid mutations
Mutations called relative to the
CY115157.1
,
CY115158.1
,
CY115156.1
,
KX058884.1
,
CY115154.1
,
CY073894.1
,
CY115152.1
&
CY115155.1
references
Substitutions
HA1
HA1:
I
117
V
HA1:
A
127
T
HA1:
E
128
K
HA1:
N
129
D
HA1:
K
136
E
HA1:
P
144
L
HA1:
N
150
K
HA1:
E
183
K
HA1:
G
184
E
HA1:
N
197
E
HA1:
A
199
T
HA1:
A
202
V
HA1:
K
203
R
HA1:
R
279
K
HA2
HA2:
R
151
K
M1
M1:
T
15
I
M1:
R
105
K
NA
NA:
P
42
Q
NA:
L
52
S
NA:
K
69
T
NA:
V
71
A
NA:
I
120
V
NA:
K
220
N
NA:
S
295
R
NA:
N
340
D
NA:
K
343
E
NA:
E
358
K
NA:
G
378
E
NA:
D
384
G
NA:
A
395
V
NA:
V
401
I
NEP
NEP:
L
30
S
NEP:
S
93
P
NS1
NS1:
Y
104
H
NS1:
K
107
N
NS1:
L
130
F
NS1:
R
181
H
NS1:
H
201
Y
NS1:
A
212
V
NS1:
V
263
M
SigPep
SigPep:
K
2
N
Deletions
HA1:162-164
Insertions
None
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