LOC_000SAMW.1

Pakistan/LOC_000SAMW.1/2017-10-13

A. Zohaib, M. Saqib, M. A. Athar, M. H. Hussain, A. U. Sial, M. H. Tayyab, M. Batool, H. Sadia, Z. Taj, U. Tahir, M. Y. Jakhrani, J. Tayyab, M. A. Kakar, M. F. Shahid, T. Yaqub, J. Zhang, Q. Wu, F. Deng, V. M. Corman, S. Shen, I. Khan, Z. L. Shi, A.-U.-R. Sial, F. Ahmed, S. Faiz, M. Furqan, S. Shu & Z.-L. Shi

Wuhan Institute of Virology, Key Lab of Special Pathogens

Sample details

Collection date

2017-10-13

Earliest release date

2020-03-31

Sampling location

Pakistan

Isolate name

61T/Pakistan

Data use terms

Changed	User	Data use terms
2026-05-09 06:41	insdc_ingest_user	OPEN

OPEN

Data use terms URL

https://#TODO-MVP/open

INSDC

NCBI release date

2020-03-31

INSDC accession L

MN135944.1

INSDC accession M

MN135943.1

INSDC accession S

MN135942.1

Submission details

Submission ID

MN135944.1.L/MN135943.1.M/MN135942.1.S

Submitting group

Automated Ingest from INSDC/NCBI Virus by Loculus

Date submitted

2026-05-09 06:41:37 UTC

Date released

2026-05-09 06:50:29 UTC

Lineage

Segment S Lineage

IV.1

Files

Annotations

LOC_000SAMW.1.embl

Alignment and QC

Total SNPs L

1640

Total inserted nucs L

Length L

12149 (99.9%)

Total SNPs S

217

Total inserted nucs S

Length S

1633 (97.6%)

Total SNPs M

665

Length M

5339 (99.5%)

Nucleotide mutations

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

Substitutions

L

G23T
A35G
G43T
T47C
T49C
C63G
C64T
T65C
T66C
T68C
G69A
G71C
C85T
G88A
G93A
A109G
C117A
A124G

M

G60A
A78T
C82T
C85T
T86C
A107G
A117G
C119T
C120T
T122C
C126T
A128G
T137C
G143A
A146G
G147A
G149A
C153A

S

A50G
G54A
G67A
T79C
C82T
G99A
G100A
A109G
A118G
C142T
T144A
C154A
T163C
C166T
G169A
T172C
C178A
T182C

Deletions

N/A

Insertions

L

ins_58:T, ins_11917:CA, ins_12054:TACAATTTT, ins_12083:ACTATTC, ins_12096:GCTCATGTCCGTTTTA, ins_12108:TGTGGGGGGAACGATTTCTT

S

ins_1577:A

Amino acid substitutions

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