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_000MJED.1

Display Name: Germany/LOC_000MJED.1/2024-09-15
G. E. Toth, M. Petersen, F. Chevenet, M. Sikora, A. Tomazatos, A. Bialonski, H. Baum, B. Horvath, P. Siriyasatien, A. Heitmann, S. Jansen, R. Offergeld, R. Lachmann, M. Schmidt, J. Schmidt-Chanasit & D. Cadar

Sample details

Collection date
2024-09-15
Collection date (lower bound)
2024-09-15
Collection date (upper bound)
2024-09-15
Earliest release date
2025-11-04
Collection country
Germany
Isolate name
2024-130

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2025-12-04 15:41insdc_ingest_userOPEN
Data use terms URL

Authors

Author affiliations
Bernhard Nocht Institute for Tropical Medicine, Department of Arbovirology and Entomology

INSDC

NCBI release date
2025-11-04
NCBI update date
2025-11-04
INSDC accession
Biosample accession
Raw reads accession

Host

Host taxon id
Host name scientific
Homo sapiens

Alignment and QC metrics

Length
10776
Total SNPs
2202
Total inserted nucs
38
Total deleted nucs
15
Total ambiguous nucs
0
Total unknown nucs
0
Total frame shifts
1
Frame shifts
[{'cdsName': 'NS4B', 'nucRel': {'begin': 95, 'end': 104}, 'nucAbs': [{'begin': 7005, 'end': 7014}], 'codon': {'begin': 30, 'end': 33}, 'gapsLeading': {'begin': 30, 'end': 30}, 'gapsTrailing': {'begin': 33, 'end': 33}}]
Completeness
97.50%
Stop codons
[]
Total stop codons
0

Submission details

Submission ID
PV221017.1
Submitting group
Date submitted
2025-12-04 15:41:50 UTC
Date released
2025-12-04 16:01:29 UTC

Lineage

Lineage
2

Files

Annotations

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • C52T
  • C123T
  • G126A
  • G128A
  • A156T
  • T167G
  • G168A
  • T180A
  • T199C
  • C204T
  • C210T
  • C216G
  • G219A
  • G222C
  • A231T
  • T234C
  • C246T
  • C255T
    • Deletions
    6994-6996, 10467-10470, 10487-10494
    Insertions
    ins_7005:GTTGA, ins_7014:G, ins_10408:TGTATTGAGT, ins_10417:GTTG, ins_10428:GCAACCTGA, ins_10452:AGA, ins_10461:AG, ins_10483:GTT, ins_10501:T

    Amino acid mutations

    Mutations called relative to the NC_009942.1 reference

    Substitutions

    2K

  • 2K:M15L

    • NS1

  • NS1:S9G
  • NS1:Y34F
  • NS1:K44R
  • NS1:K51A
  • NS1:V71I
  • NS1:E94N
  • NS1:S99A
  • NS1:T105A
  • NS1:I113M
  • NS1:L123I
  • NS1:V135I
  • NS1:K141E
  • NS1:Q146A
  • NS1:L153M
  • NS1:K170R
  • NS1:V171I
  • NS1:S174T
  • NS1:L192M

    • NS2A

  • NS2A:M34I
  • NS2A:L38M
  • NS2A:I39L
  • NS2A:S68A
  • NS2A:M90L
  • NS2A:N104S
  • NS2A:V112A
  • NS2A:H119Y
  • NS2A:R122K
  • NS2A:Q123N
  • NS2A:I124V
  • NS2A:L126S
  • NS2A:I129V
  • NS2A:A137S
  • NS2A:T147S
  • NS2A:T150N
  • NS2A:R167K
  • NS2A:I183V

    • NS2B

  • NS2B:A41V
  • NS2B:S61T
  • NS2B:M88I
  • NS2B:V103A
  • NS2B:V120I

    • NS3

  • NS3:K11R
  • NS3:Q92H
  • NS3:F130Y
  • NS3:D172E
  • NS3:I175A
  • NS3:R203K
  • NS3:R215K
  • NS3:A233S
  • NS3:P249H
  • NS3:N253I
  • NS3:V283I
  • NS3:S302A
  • NS3:S331A
  • NS3:L336M
  • NS3:S347T
  • NS3:T356V
  • NS3:K382R
  • NS3:V384I

    • NS4A

  • NS4A:I6V
  • NS4A:K11R
  • NS4A:T64S
  • NS4A:M65L
  • NS4A:A85V
  • NS4A:V86I
  • NS4A:V89A

    • NS4B

  • NS4B:S11N
  • NS4B:F17L
  • NS4B:Q19H
  • NS4B:R20K
  • NS4B:I21P
  • NS4B:T116A
  • NS4B:I168V
  • NS4B:L183M
  • NS4B:K193R
  • NS4B:I202T

    • NS5

  • NS5:Q18H
  • NS5:I33T
  • NS5:K45R
  • NS5:V49I
  • NS5:I78V
  • NS5:R101K
  • NS5:C139A
  • NS5:C140S
  • NS5:I162V
  • NS5:R177K
  • NS5:V181I
  • NS5:K190R
  • NS5:L197T
  • NS5:R224H
  • NS5:V229I
  • NS5:R247K
  • NS5:Y254F
  • NS5:R287K

    • capsid

  • capsid:S11N
  • capsid:V24G
  • capsid:S100T
  • capsid:K108T
  • capsid:T109A
  • capsid:I111F
  • capsid:A112T
  • capsid:V113I
  • capsid:M114L
  • capsid:I115L
  • capsid:S120C
  • capsid:V121A

    • env

  • env:E55D
  • env:T64S
  • env:K71R
  • env:D83E
  • env:R93K
  • env:S122T
  • env:I126T
  • env:R128W
  • env:T129I
  • env:L131Q
  • env:V159A
  • env:L167F
  • env:A172S
  • env:N199S
  • env:T205S
  • env:T208A
  • env:T210S
  • env:V232T

    • prM

  • prM:M44L
  • prM:D46E
  • prM:S57A
  • prM:A73S
  • prM:M112L
  • prM:V156A
  • prM:V157I
    • Deletions
    NS4B:28-30
    Insertions
    ins_NS4B:22:TRETTLG

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