This is a demonstration environment. It may contain non-accurate test data and should not be used for real-world applications. Data will be deleted regularly.

LOC_0019RMF.1

Pakistan/LOC_0019RMF.1/2018
M. Umair, Z. Rehman, S. Whitmer, M. Mobley, A. Fahim, A. Ikram, M. Salman, J. M. Montgomery, J. D. Klena, A. Khurshid, E. Talundzic, J. Montgomery & J. Klena

CDC, NCEZID-VSPB

Sample details

Collection date
2018
Earliest release date
2024-07-26
Sampling location
Pakistan
Isolate name
202000297_842018|Pakistan|2018

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2026-03-10 18:00insdc_ingest_userOPEN
Data use terms URL

INSDC

NCBI release date
2024-07-26
INSDC accession L
INSDC accession M
INSDC accession S

Submission details

Submission ID
OM162102.1.L/OM162103.1.M/OM162104.1.S
Submitting group
Date submitted
2026-03-10 17:59:38 UTC
Date released
2026-03-10 18:07:58 UTC

Host

Host

Lineage

Segment S Lineage
IV.2

Files

Annotations

Alignment and QC

Total SNPs L
1650
Total inserted nucs L
43
Length L
12136 (99.9%)
Variant L
True
Total SNPs M
1026
Total inserted nucs M
1
Length M
5345 (99.6%)
Variant M
True
Total SNPs S
233
Total inserted nucs S
1
Length S
1659 (99.2%)
Variant S
False

Nucleotide mutations

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

Substitutions

L

  • G23T
  • A35G
  • G43T
  • T49C
  • C63G
  • C64T
  • T65C
  • T66C
  • T68C
  • G69A
  • G71C
  • C85T
  • G88A
  • G93A
  • A109G
  • C117A
  • A124G
  • T131A

M

  • G50T
  • A51G
  • G56A
  • A57C
  • A69G
  • A70G
  • T71A
  • T72C
  • G76T
  • A80G
  • T83C
  • C85T
  • T91C
  • C92T
  • T98C
  • T102C
  • C103T
  • T105C

S

  • T48C
  • G54A
  • A61G
  • C64T
  • G67A
  • T79C
  • G99A
  • A109G
  • A118G
  • C142T
  • T157C
  • C166T
  • C178A
  • T182C
  • C187T
  • G190A
  • G196A
  • C217T
Deletions
N/A
Insertions

L

ins_58:T, ins_11917:CA, ins_12053:CTAC, ins_12108:GTTCATGTCCGTTTTATTATTTCTGGGGTGYGGGGG

M

ins_5170:G

S

ins_1579:A

Amino acid mutations

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

Substitutions

GPC

  • GPC:S4L
  • GPC:M6V
  • GPC:Y7C
  • GPC:I9V
  • GPC:L10F
  • GPC:C15W
  • GPC:L17P
  • GPC:E19G
  • GPC:S23L
  • GPC:H24S
  • GPC:R28Q
  • GPC:H29Y
  • GPC:D33S
  • GPC:T34I
  • GPC:M35T
  • GPC:T36R
  • GPC:T37A
  • GPC:G39E

NP

  • NP:R15K
  • NP:D116E
  • NP:T124A
  • NP:G125N
  • NP:N150H
  • NP:H195R
  • NP:D199E
  • NP:R202K
  • NP:I246V
  • NP:R270K
  • NP:S275N
  • NP:S301G
  • NP:V436I

RdRp

  • RdRp:S6N
  • RdRp:A14D
  • RdRp:S19T
  • RdRp:Y60N
  • RdRp:R63H
  • RdRp:S67V
  • RdRp:K71R
  • RdRp:R80K
  • RdRp:V82I
  • RdRp:I114V
  • RdRp:I117V
  • RdRp:T163V
  • RdRp:A168T
  • RdRp:M172V
  • RdRp:R174K
  • RdRp:A202M
  • RdRp:S205P
  • RdRp:N206Y
Deletions
N/A
Insertions
N/A

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