PP_006XDHK.3

Restricted-Use sequence

This sequence is only available under the Restricted Use Terms. This prohibits publications that use this sequence as focal data during the restricted-use period, except with the consent of the sequence submitters.
Canada/PP_006XDHK.3/2026-05-15
Jonathan Audet, Mable Chan & Dave Safronetz

Special Pathogens, National Microbiology Laboratory, Public Health Agency of Canada

Sample details

Collection date
2026-05-15
Sampling location
Canada

Data use terms

Data use terms
RESTRICTED

Data use terms history

ChangedUserData use terms
2026-05-17 22:15jaudetRESTRICTED until 2027-05-17
Data use terms URL

Host

Host

Sequencing

Sequencing protocol
The RNA was extracted using the Qiagen viral RNA kit. The reverse transcription was performed using SuperScript IV (ThermoFisher) following the manufacturer’s recommendation, using 8 µL of RNA. The PCR step was carried out using Phusion U Multiplex Master Mix (ThermoFisher) with 2 µL of template in 25 µL reactions. The cycling conditions were 98°C for 2 minutes,...

Submission details

Submission ID
HAN260145
Submitting group
Date submitted
2026-05-19 19:22:12 UTC
Date released
2026-05-19 19:23:37 UTC
Earliest release date
2026-05-17

Alignment and QC

Length L
6458 (98.4%)
# of SNPs L
385
Length S
1792 (95.6%)
# of SNPs S
124
# of inserted bases S
6
# of deleted bases S
2
Length M
3628 (87.6%)
# of SNPs M
175
# of unknown bases M
413

Nucleotide mutations

Mutations called relative to the NC_003468.2, NC_003467.2 & NC_003466.1 references

Substitutions

L

  • T47C
  • G62A
  • T68G
  • C74T
  • C131T
  • C146T
  • C147T
  • G149A
  • C155T
  • C173T
  • T182C
  • T215C
  • A218G
  • A233C
  • T278C
  • A296G
  • T297C
  • A302G

M

  • T74C
  • T90C
  • G114A
  • C147T
  • C174T
  • C190T
  • A192G
  • C231T
  • C243T
  • A264G
  • T312C
  • C315T
  • G339A
  • T345C
  • A360G
  • T363C
  • A381G
  • T387C

S

  • G63A
  • G66A
  • G120A
  • A135G
  • T202C
  • A219G
  • T225C
  • T244C
  • T306C
  • G315A
  • A318G
  • C328T
  • C417T
  • C444A
  • G450A
  • T454C
  • C459T
  • G465A
Deletions

S

1443, 1573
Insertions

S

ins_1486:T, ins_1555:A, ins_1631:TTT, ins_1668:T

Amino acid substitutions

Substitutions called relative to the NC_003468.2, NC_003467.2 & NC_003466.1 references

Substitutions

GPC

  • GPC:V8A
  • GPC:I114V
  • GPC:V346I
  • GPC:T353V
  • GPC:T1023A
  • GPC:S1055T
  • GPC:V1127I

NSs

  • NSs:Q5R
  • NSs:E33G
  • NSs:L35S
  • NSs:I62T

RdRp

  • RdRp:T141I
  • RdRp:L277S
  • RdRp:S338A
  • RdRp:R346K
  • RdRp:I402V
  • RdRp:A541V
  • RdRp:D780N
  • RdRp:N1033D
  • RdRp:D1303E
  • RdRp:V1665I
  • RdRp:K1750R
  • RdRp:T2113A
Deletions
N/A
Insertions
N/A

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