LOC_000Q0MA.1

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India/LOC_000Q0MA.1/2019

R. R. Sahay, S. Dhandore, P. D. Yadav, A. Chauhan, L. Bhatt, V. Garg, N. Gupta, D. A. Nyayanit, A. M. Shete, R. Singh, S. Patil, H. Sharma, D. Meena, J. Gupta, P. Gawande, K. Kalele, R. Jain, D. Mali, B. Malhotra, V. Nag, P. K. Khatri, H. Kaur, N. Vijay, S. Singh & M. Gopalakrishnan

National Institute of Virology, Maximum Containment Laboratory

Sample details

Collection date

2019

Earliest release date

2020-06-24

Sampling location

India (Gujarat State,Amreli)

Isolate name

19-T-2031

Data use terms

OPEN

Data use terms URL

https://#TODO-MVP/open

INSDC

NCBI release date

2020-06-24

INSDC accession L

MN930406.1

INSDC accession M

MN930411.1

INSDC accession S

MN930425.1

Submission details

Submission ID

MN930406.1.L/MN930411.1.M/MN930425.1.S

Submitting group

Automated Ingest from INSDC/NCBI Virus by Loculus

Date submitted

2026-11-12 12:19:40 UTC

Date released

2026-11-12 12:23:31 UTC

Lineage

Segment S Lineage

IV.1

Files

Annotations

LOC_000Q0MA.1.embl

Alignment and QC

Total SNPs M

1560

Total inserted nucs M

Total deleted nucs M

Length M

5357 (99.5%)

Total SNPs L

1648

Total inserted nucs L

Total deleted nucs L

Total unknown nucs L

Length L

12103 (99.8%)

Total SNPs S

220

Length S

1633 (97.7%)

Nucleotide mutations

Mutations called relative to the NC_005301.3, NC_005300.2 & NC_005302.1 references

Substitutions

L

A35G
C37T
G43T
T49C
C63G
C64T
T65C
T66C
T68C
G69A
G71C
C85T
G88A
G93A
A109G
C117A
A124G
T131A

M

C26T
G50C
A51G
A52T
G56T
T58A
T59A
T65A
C66T
T67C
A69G
A70T
T71G
T72A
G76A
A80G
C81T
C82T

S

A50G
G54A
G67A
C82T
G99A
G100A
A118G
C142T
C154A
T163C
C166T
G169A
T172C
C178A
T182C
G190A
T199C
C208T

Deletions

L

12029

M

297-305, 628-630, 678-689, 5172-5186

Insertions

L

ins_58:T, ins_11917:CA, ins_12108:TACCTTTCATTTCAGT

M

ins_236:CCGTCAACAGACACCGCC, ins_365:GTTGCCATTGTCCAAACACAAGAAACAGAAGCACCC, ins_5202:CA, ins_5248:C

Amino acid substitutions

Substitutions called relative to the NC_005301.3, NC_005300.2 & NC_005302.1 references