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_0019RU1.1

Pakistan/LOC_0019RU1.1/2018
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
202000306_442018|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
OM162119.1.L/OM162120.1.M/OM162121.1.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.1

Files

Annotations

Alignment and QC

Total SNPs L
1658
Total inserted nucs L
39
Length L
12131 (99.9%)
Variant L
True
Total SNPs S
218
Total inserted nucs S
1
Length S
1633 (97.6%)
Variant S
False
Total SNPs M
685
Length M
5330 (99.3%)
Variant M
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

  • A69G
  • C77T
  • C82T
  • C85T
  • T86C
  • A107G
  • A117G
  • C119T
  • C120T
  • T122C
  • C126T
  • A128G
  • G131A
  • T137C
  • G143A
  • A146G
  • G147A
  • C153A

S

  • C14G
  • A50G
  • G54A
  • G67A
  • T79C
  • A81G
  • G99A
  • A109G
  • A118G
  • C166T
  • G169A
  • T172C
  • C178A
  • T182C
  • G190A
  • G196A
  • T199C
  • C208T
Deletions
N/A
Insertions

L

ins_58:T, ins_11931:AT, ins_12054:TACAATTT, ins_12083:ACTATTC, ins_12108:TTTATTATTTCTGGGGCGTGG

S

ins_1584:C

Amino acid mutations

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

Substitutions

GPC

  • GPC:I9V
  • GPC:L10F
  • GPC:E19K
  • GPC:H21N
  • GPC:S23P
  • GPC:E26G
  • GPC:R28E
  • GPC:K31N
  • GPC:D33H
  • GPC:T34V
  • GPC:G39D
  • GPC:N41S
  • GPC:P42Q
  • GPC:S44P
  • GPC:S53P
  • GPC:I54V
  • GPC:L56P
  • GPC:T64S

NP

  • NP:N9S
  • NP:R15K
  • NP:V83A
  • NP:D116E
  • NP:T124S
  • NP:G125N
  • NP:H195R
  • NP:D199E
  • NP:I246V
  • NP:R270K
  • NP:S301G
  • NP:A307V
  • NP:E322D
  • NP:Q405L
  • NP:V436I

RdRp

  • RdRp:S6N
  • RdRp:A14D
  • RdRp:S19T
  • RdRp:Y60N
  • RdRp:R63H
  • RdRp:S67V
  • RdRp:R80K
  • RdRp:V82I
  • RdRp:I114V
  • RdRp:T163A
  • RdRp:A168T
  • RdRp:M172V
  • RdRp:R174K
  • RdRp:S205P
  • RdRp:N206Y
  • RdRp:I223V
  • RdRp:N236S
  • RdRp:K275R
Deletions
N/A
Insertions
N/A

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