Mexico/MN0055_LESPM_IBT_LEVE/2024-06-03
M. I. Valle-Maldonado, F. A. Sanchez-Flores, R. Grande, I. Salinas-Peralta, M. A. Garcia-Knight, S. I. Mora-Herrera, B. V. Rivera-Serrano & ARCC. Consortium

Laboratorio Estatal de Salud Pública de Michoacán, Morelia, Michoacán, Mexico; Unidad Universitaria de Secuenciación Masiva y Bioinformática, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca, Morelos, Mexico; Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, Mexico City, Mexico; ARCC Research Consortium.

Sample details

Collection date
2024-06-03
Sampling location
Mexico (Michoacan)
Culture ID
Phlebotomy

Data use terms

Data use terms
RESTRICTED

Clade

Clade
Asian

Sampling

Anatomical material
Blood

Sequencing

Sequencing date
2025-09-04
Sequencing instrument
ILLUMINA
Sequencing library selection
PCR
Reference genome accession
KJ776791.2
Consensus sequence software name
iVar
Consensus sequence software version
1.4.2

Diagnostics

Diagnostic measurement - method
RT-qPCR

Submission details

Submission ID
MN0055_LESPM_IBT_LEVE
Submitting group
Date submitted
2026-10-07 06:31:44 UTC
Date released
2026-10-07 06:33:21 UTC
Earliest release date
2026-10-07

Files


Alignment and QC

Length
9085 (59%)
# of SNPs
74
# of unknown bases
2706

Nucleotide mutations

Mutations called relative to the NC_035889.1 reference

Substitutions
  • G420A
  • G536A
  • T635C
  • C1070T
  • T1115C
  • C1196A
  • C1220T
  • A1874G
  • G2015A
  • C2375T
  • G2402A
  • C2411T
  • G2507A
  • T2609C
  • G2681A
  • T2724C
  • T2741C
  • T2767C
Deletions
N/A
Insertions
N/A

Amino acid substitutions

Substitutions called relative to the NC_035889.1 reference

Substitutions

NS1

  • NS1:V93A
  • NS1:G100A
  • NS1:E146K
  • NS1:V183I
  • NS1:T222A
  • NS1:A233T

NS2A

  • NS2A:K56R

NS3

  • NS3:R169K
  • NS3:M572L

NS5

  • NS5:K397R
  • NS5:R525C

ancC

  • ancC:G105S
Deletions
N/A
Insertions
N/A

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