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LOC_000S609.1
Download
Download FASTA
Download metadata TSV
India/804994/1980-01-01
V. P. Bondre,
R. S. Jadi &
V. A. Arankalle
National Institute of Virology, Microbial Containment Complex
Sample details
Collection date
1980
Earliest release date
2006-10-31
Sampling location
India
Isolate name
804994
Data use terms
Data use terms
OPEN
(history)
Data use terms URL
https://#TODO-MVP/open
INSDC
NCBI release date
2006-10-31
NCBI update date
2006-10-31
INSDC accession
DQ256376.1
Host
Host
human (Homo sapiens)
Submission details
Submission ID
DQ256376.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2026-08-26 20:01:00 UTC
Date released
2026-08-26 20:02:37 UTC
Lineage
Lineage
5
Files
Annotations
LOC_000S609.1.embl
Alignment and QC
Total SNPs
2166
Total inserted nucs
26
Total deleted nucs
41
Length
11014 (100%)
Amino Acid Mutations from founder clade
NS2B:
V
41
A
NS3:
R
382
K
NS3:
R
595
W
NS4B:
A
115
T
NS5:
G
106
R
NS5:
K
314
N
NS5:
T
316
L
NS5:
G
317
V
env:
S
156
A
env:
T
208
K
env:
D
390
E
env:
K
440
Q
Variant
True
Nucleotide mutations
Mutations called relative to the
NC_009942.1
reference
Substitutions
A
51
T
C
52
G
C
69
T
C
86
A
C
93
T
G
96
A
G
128
A
T
135
C
T
169
A
T
180
A
G
186
A
C
205
T
C
210
A
G
222
A
A
225
G
A
231
T
T
234
C
T
243
A
Show more
Deletions
418-423, 10393-10410, 10466-10469, 10479-10487, 10714, 10717-10719
Insertions
ins_444:TTAGGA, ins_10420:TA, ins_10440:GATT, ins_10448:AAATAGGA, ins_10450:AGC, ins_10457:T, ins_10499:A, ins_10788:G
Amino acid substitutions
Substitutions called relative to the
NC_009942.1
reference
Substitutions
2K
2K:
M
15
L
2K:
S
19
G
NS1
NS1:
S
9
G
NS1:
K
51
Q
NS1:
E
69
D
NS1:
A
70
S
NS1:
V
88
I
NS1:
S
99
A
NS1:
T
105
K
NS1:
I
113
M
NS1:
L
123
I
NS1:
L
128
I
NS1:
K
141
E
NS1:
T
145
S
NS1:
N
147
S
NS1:
L
153
M
NS1:
V
171
I
NS1:
S
174
V
NS1:
S
181
A
NS1:
R
205
G
Show more
NS2A
NS2A:
M
34
G
NS2A:
L
38
M
NS2A:
F
46
L
NS2A:
S
93
T
NS2A:
L
95
V
NS2A:
Q
123
H
NS2A:
L
126
Q
NS2A:
E
128
G
NS2A:
T
150
N
NS2A:
R
167
K
NS2A:
V
181
I
NS2A:
L
203
I
NS2A:
L
212
S
NS2B
NS2B:
I
26
M
NS2B:
T
57
V
NS2B:
S
64
N
NS2B:
I
97
L
NS2B:
V
103
A
NS2B:
V
120
I
NS3
NS3:
E
12
V
NS3:
L
30
I
NS3:
Q
92
H
NS3:
E
101
K
NS3:
K
104
E
NS3:
N
105
S
NS3:
S
160
A
NS3:
D
172
E
NS3:
I
175
P
NS3:
A
177
V
NS3:
E
182
D
NS3:
T
190
S
NS3:
R
203
K
NS3:
K
210
R
NS3:
V
221
I
NS3:
P
249
T
NS3:
N
253
S
NS3:
S
323
H
Show more
NS4A
NS4A:
I
3
V
NS4A:
K
11
R
NS4A:
I
54
V
NS4A:
S
61
G
NS4A:
A
85
V
NS4A:
V
86
I
NS4A:
L
87
I
NS4B
NS4B:
S
14
G
NS4B:
R
20
K
NS4B:
I
21
L
NS4B:
V
23
A
NS4B:
N
26
S
NS4B:
M
29
V
NS4B:
V
51
F
NS4B:
V
93
I
NS4B:
A
115
T
NS4B:
T
116
A
NS4B:
V
126
I
NS4B:
T
165
A
NS4B:
I
168
M
NS4B:
I
176
V
NS4B:
K
193
R
NS4B:
G
232
E
NS4B:
M
248
L
NS5
NS5:
R
15
K
NS5:
T
20
S
NS5:
T
25
S
NS5:
K
45
R
NS5:
V
49
I
NS5:
T
59
S
NS5:
R
69
K
NS5:
L
71
V
NS5:
K
76
R
NS5:
G
106
R
NS5:
C
139
S
NS5:
I
162
L
NS5:
R
177
K
NS5:
I
192
V
NS5:
L
197
V
NS5:
R
224
Q
NS5:
V
229
I
NS5:
S
232
A
Show more
capsid
capsid:
S
11
N
capsid:
L
25
M
capsid:
R
55
K
capsid:
V
65
L
capsid:
S
93
N
capsid:
I
95
M
capsid:
S
100
T
capsid:
K
108
V
capsid:
T
109
V
capsid:
I
111
V
capsid:
A
112
M
capsid:
V
113
A
capsid:
M
114
V
capsid:
I
115
L
capsid:
I
118
V
capsid:
S
120
C
capsid:
A
123
S
env
env:
S
16
T
env:
V
21
L
env:
M
46
T
env:
A
51
T
env:
L
62
A
env:
P
88
S
env:
F
90
Y
env:
R
93
K
env:
K
118
R
env:
I
126
T
env:
S
156
A
env:
V
159
Q
env:
L
167
F
env:
T
208
K
env:
S
230
G
env:
T
231
N
env:
M
240
V
env:
I
253
V
Show more
prM
prM:
T
20
A
prM:
D
21
N
prM:
V
22
I
prM:
A
29
S
prM:
I
35
T
prM:
Y
43
F
prM:
V
55
A
prM:
S
57
A
prM:
S
72
A
prM:
T
98
A
prM:
M
112
L
prM:
A
139
V
prM:
T
149
N
Deletions
N/A
Insertions
N/A
Nucleotide sequence
Aligned nucleotide sequence
Aligned amino acid sequences
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