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_000QJ3V.1

Tajikistan/LOC_000QJ3V.1/2023-05-23
J. D'Addiego, M. Mullojanova, T. Hikmatov, F. Tishkova & R. Hewson

UK Health Security Agency, Research & Evaluation

Sample details

Collection date
2023-05-23
Earliest release date
2025-07-27
Sampling location
Tajikistan
Isolate name
CCHFV_30_185

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2026-06-18 16:23insdc_ingest_userOPEN
Data use terms URL

INSDC

NCBI release date
2025-07-27
INSDC accession L
INSDC accession M
INSDC accession S

Host

Host

Submission details

Submission ID
PV953859.1.L/PV953858.1.M/PV953857.1.S
Submitting group
Date submitted
2026-06-18 16:23:49 UTC
Date released
2026-06-18 16:27:49 UTC

reference_L
[{"label":"Variant L","name":"variant_L","customDisplay":{"type":"variantReference","displayGroup":"reference_L","label":"Closest reference L"},"value":true,"header":"Clade & Lineage","type":{"kind":"metadata","metadataType":"boolean"}}]
reference_M
[{"label":"Variant M","name":"variant_M","customDisplay":{"type":"variantReference","displayGroup":"reference_M","label":"Closest reference M"},"value":true,"header":"Clade & Lineage","type":{"kind":"metadata","metadataType":"boolean"}}]
reference_S
[{"label":"Variant S","name":"variant_S","customDisplay":{"type":"variantReference","displayGroup":"reference_S","label":"Closest reference S"},"value":true,"header":"Clade & Lineage","type":{"kind":"metadata","metadataType":"boolean"}}]

Clade & Lineage

Closest reference L
N/A
Closest reference M
N/A
Closest reference S
N/A (variant)

Files

Annotations

Alignment and QC

Length L
12122 (95.3%)
Length M
4809 (87.5%)
Length S
1671 (89.6%)
Total SNPs L
1420
Total SNPs M
836
Total SNPs S
215
Total inserted nucs L
40
Total inserted nucs M
1
Total inserted nucs S
16
Total deleted nucs L
3
Total ambiguous nucs L
245
Total ambiguous nucs M
32
Total ambiguous nucs S
37
Total unknown nucs L
300

Nucleotide mutations

Mutations called relative to the NC_005301.3, MH396653.1 & OL774851.1 references

Substitutions

L segment

  • A35G
  • G43C
  • C48T
  • T49C
  • C59T
  • T62C
  • C64T
  • T65G
  • G71T
  • A72T
  • C85T
  • G93A
  • A109G
  • G112A
  • T121C
  • T131A
  • C136T
  • T151C

M segment

  • T538G
  • G547C
  • C551A
  • T553A
  • C557T
  • A565G
  • A566G
  • C569T
  • G577A
  • T578G
  • A583T
  • T584C
  • G588A
  • C589A
  • A594C
  • T595A
  • A597G
  • T599A

S segment

  • T16A
  • C31G
  • T32C
  • G34A
  • A45G
  • C48T
  • T63C
  • A84G
  • A98T
  • A102G
  • C126T
  • T141C
  • C150T
  • T166C
  • A173G
  • G174A
  • G180A
  • C183T
Deletions

L segment

11996, 12086, 12087
Insertions

L segment

ins_67:CT, ins_11931:AT, ins_12051:TAGTCCAATTCTTTCARY, ins_12108:YTGATTATTTCTAGGGTG

M segment

ins_5165:A

S segment

ins_0:TCTCAAAGAAACACGT

Amino acid substitutions

Substitutions called relative to the NC_005301.3, MH396653.1 & OL774851.1 references

Substitutions

GPC

  • GPC:P155T
  • GPC:P157S
  • GPC:T160A
  • GPC:P161S
  • GPC:S164A
  • GPC:K165N
  • GPC:S166P
  • GPC:G167E
  • GPC:D169A
  • GPC:N170S
  • GPC:L171I
  • GPC:A172E
  • GPC:T173N
  • GPC:N174S
  • GPC:P176Q
  • GPC:P178L
  • GPC:T180A
  • GPC:R182D

NP

  • NP:Y20F
  • NP:K45R
  • NP:D116E
  • NP:N150H
  • NP:Q179L
  • NP:D199E
  • NP:R270K
  • NP:S275N
  • NP:R428K

RdRp

  • RdRp:S6N
  • RdRp:S19T
  • RdRp:Y60N
  • RdRp:R63H
  • RdRp:S67V
  • RdRp:R80K
  • RdRp:V82I
  • RdRp:L90I
  • RdRp:I114V
  • RdRp:T163A
  • RdRp:A168T
  • RdRp:M172V
  • RdRp:R174K
  • RdRp:S205P
  • RdRp:N206Y
  • RdRp:K275R
  • RdRp:I279V
  • RdRp:V352I
Deletions
N/A
Insertions
N/A