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_00002MP.1

Source

ReVSeq source accession
ENA sequence accession
ENA segment accessions
OZ373680;OZ373681;OZ373682;OZ373683;OZ373684;OZ373685;OZ373686;OZ373687
ENA run accession
ENA sample accession

Sample

Scientific name
Influenza A virus (A/Michigan/45/2015(H1N1))
Collection date
2024-02-16
Country
Switzerland
Consensus length total
13158

Lineage and Clade

Influenza A subtype
H1N1
Assigned reference HA
H1N1
Assigned reference M
H3N2
Assigned reference NA
H1N1
Assigned reference NP
H1N1
Assigned reference NS
H1N1
Assigned reference PB1
H1N1
Assigned reference PB2
H1N1
H1N1 HA clade
C.1.9
H1N1 HA legacy clade
6B.1A.5a.2a
H1N1 HA subclade
C.1.9

Nextclade QC

Nextclade coverage HA
0.2608447488584475
Nextclade coverage M
0.17818889970788704
Nextclade coverage NA
0.4989532449406839
Nextclade coverage NP
0.10754843019372078
Nextclade coverage NS
0.43568945538818077
Nextclade coverage PB1
0.0919085312225154
Nextclade coverage PB2
0.15219298245614035
Nextclade QC status HA
good
Nextclade QC status M
good
Nextclade QC status NA
good
Nextclade QC status NP
good
Nextclade QC status NS
good
Nextclade QC status PB1
good
Nextclade QC status PB2
good
Nextclade QC score HA
6.25
Nextclade QC score M
18.777777777777782
Nextclade QC score NA
0
Nextclade QC score NP
0
Nextclade QC score NS
0
Nextclade QC score PB1
0
Nextclade QC score PB2
0
Mixed sites QC score HA
25
Mixed sites QC score M
0
Mixed sites QC score NA
0
Mixed sites QC score NP
0
Mixed sites QC score NS
0
Mixed sites QC score PB1
0
Mixed sites QC score PB2
0
Private mutations QC score HA
0
Private mutations QC score M
43.333333333333336
Private mutations QC score NA
0
Private mutations QC score NP
0
Private mutations QC score NS
0
Private mutations QC score PB1
0
Private mutations QC score PB2
0
Frame shifts QC score HA
0
Frame shifts QC score M
0
Frame shifts QC score NA
0
Frame shifts QC score NP
0
Frame shifts QC score NS
0
Frame shifts QC score PB1
0
Frame shifts QC score PB2
0
Stop codons QC score HA
0
Stop codons QC score M
0
Stop codons QC score NA
0
Stop codons QC score NP
0
Stop codons QC score NS
0
Stop codons QC score PB1
0
Stop codons QC score PB2
0

Submission details

Submission ID
SAMEA120641432
Submitting group
Date submitted
2026-06-11 11:36:45 UTC
Date released
2026-06-11 11:36:55 UTC

Alignment and QC

Length HA
1572
Length M
346
Length NA
1174
Length NP
622
Length NS
716
Length PB1
1334
Length PB2
2003

Nucleotide mutations

Mutations called relative to the NC_026438.1, NC_026435.1, CY121680.1, NC_026436.1, MW626056.1, NC_007367.1 & NC_026432.1 references

Substitutions

HA

  • C293A
  • C318T
  • G322A
  • G338T
  • G360A
  • G380A
  • C443T
  • A456G
  • A461T
  • T485C
  • A599G
  • T718C
  • G739A
  • A742C
  • A1032G
  • T1061C
  • C1073T
  • T1076C

M

  • A475T
  • T511C
  • G514A
  • T522C
  • G523T
  • G524A
  • A526T
  • A637G
  • A638G
  • G645A
  • C647A
  • G650A
  • C652T
  • A658G
  • G664A
  • G667T
  • G677A
  • C679T

NA

  • C452A
  • C893T
  • G914T
  • A1049G
  • A1193G
  • G1365A

NP

  • C249A
  • A288C
  • G298A

NS

  • T99C
  • C108A
  • A367G
  • A375T
  • A391G
  • G396A
  • T414C
  • G463A
  • A558G
  • A614G
  • G721A
  • G724A
  • G745A
  • A757G

PB1

  • A781T
  • A1905G
  • T1914C

PB2

  • A132G
  • A138G
  • G161A
  • A174G
  • C600A
  • G1614A
  • T1620C
  • G1665A
  • A1998G
  • G1999A
  • T2082C
  • G2091A
  • A2109G
Deletions
N/A
Insertions
N/A

Amino acid substitutions

Substitutions called relative to the NC_026438.1, NC_026435.1, CY121680.1, NC_026436.1, MW626056.1, NC_007367.1 & NC_026432.1 references

Substitutions
N/A
Deletions
N/A
Insertions
N/A

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