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_000PEL0.1

Display Name: Tajikistan/LOC_000PEL0.1/2017-06-29
D'Addiego, J.; Mullojanova, M.; Hikmatov, T.; Tishkova, F.; Hewson, R.

Submission details

Submission ID
PV390623.1.L/PV390616.1.M/PV390605.1.S
Submitting group
Date submitted
2025-04-18 08:49:47 UTC
Date released
2025-04-18 08:54:38 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2025-04-18 08:49insdc_ingest_userOPEN
Data use terms URL

Authors

Author affiliations
UK Health Security Agency, Research & Evaluation

Alignment and QC metrics L

Completeness L
97.22%
Length L
12131
Total ambiguous nucs L
32
Total deleted nucs L
9
Total frame shifts L
0
Total inserted nucs L
55
Total SNPs L
1550
Total unknown nucs L
282

Alignment and QC metrics M

Completeness M
98.88%
Length M
5314
Total ambiguous nucs M
7
Total deleted nucs M
9
Total frame shifts M
0
Total inserted nucs M
10
Total SNPs M
1021
Total unknown nucs M
0

Alignment and QC metrics S

Completeness S
99.34%
Length S
1673
Total ambiguous nucs S
11
Total deleted nucs S
0
Total frame shifts S
0
Total inserted nucs S
1
Total SNPs S
216
Total unknown nucs S
0

Sample details

Earliest release date
2025-04-05
Collection country
Tajikistan
Collection date
2017-06-29
Collection date (lower bound)
2017-06-29
Collection date (upper bound)
2017-06-29
Isolate name
CCHFV_R.I.30

Host

Host name scientific
Homo sapiens
Host taxon id

INSDC

INSDC accession L
INSDC accession M
INSDC accession S
NCBI release date
2025-04-05

Nucleotide mutations

Mutations called relative to the NC_005301.3, NC_005300.2 & NC_005302.1 references

Substitutions

L

  • L:A35G
  • L:G43C
  • L:C48T
  • L:T49C
  • L:C59T
  • L:C64T
  • L:T65G
  • L:G71T
  • L:A72T
  • L:C85T
  • L:G93A
  • L:A109G
  • L:G112A
  • L:T121C
  • L:T131A
  • L:C136T
  • L:T151C
  • L:T154C

    • M

  • M:G50T
  • M:A51G
  • M:G56A
  • M:A57C
  • M:A70G
  • M:T71A
  • M:A80G
  • M:T83C
  • M:G84T
  • M:C85T
  • M:T86C
  • M:C92T
  • M:C96T
  • M:T98C
  • M:T100C
  • M:T102C
  • M:T105C
  • M:A108T

    • S

  • S:A50G
  • S:G54A
  • S:G67A
  • S:T79C
  • S:C82T
  • S:G99A
  • S:A109G
  • S:A118G
  • S:T144A
  • S:C166T
  • S:G169A
  • S:T172C
  • S:C178A
  • S:T181C
  • S:T182C
  • S:G190A
  • S:T199C
  • S:G202A
    • Deletions
    L:11928-11931, L:11974-11978, M:219-224, M:271-273
    Insertions
    ins_S:1577:A, ins_M:229:TAGTTT, ins_M:263:CTT, ins_M:5171:C, ins_L:11987:T, ins_L:12101:AG, ins_L:12044:TCTATTTTAGTTCA, ins_L:12106:TTATTTCTAGGGTGKGGG, ins_L:12085:TC, ins_L:12108:GAA, ins_L:12062:C, ins_L:11921:ATCTGT, ins_L:11995:G, ins_L:11993:CG, ins_L:66:CC, ins_L:12055:CAT

    Amino acid mutations

    Mutations called relative to the NC_005301.3, NC_005300.2 & NC_005302.1 references

    Substitutions

    GPC

  • GPC:H2Y
  • GPC:I3T
  • GPC:S4P
  • GPC:M6L
  • GPC:Y7C
  • GPC:I9V
  • GPC:Q13K
  • GPC:C15W
  • GPC:G16S
  • GPC:L17S
  • GPC:G18E
  • GPC:E19G
  • GPC:T20A
  • GPC:S23L
  • GPC:H24S
  • GPC:E26G
  • GPC:R28Q
  • GPC:N30S

    • NP

  • NP:R15K
  • NP:F30Y
  • NP:V83A
  • NP:D116E
  • NP:T124S
  • NP:G125N
  • NP:H195R
  • NP:D199E
  • NP:I246V
  • NP:R270K
  • NP:S301G
  • NP:A307V
  • NP:E322D
  • NP:Q405L
  • NP:V436I

    • RdRp

  • RdRp:S6N
  • RdRp:S19T
  • RdRp:Y60N
  • RdRp:R63H
  • RdRp:S67V
  • RdRp:R80K
  • RdRp:V82I
  • RdRp:L90I
  • RdRp:I114A
  • RdRp:T163A
  • RdRp:A168T
  • RdRp:M172V
  • RdRp:R174K
  • RdRp:A202V
  • RdRp:S205P
  • RdRp:N206Y
  • RdRp:K275R
  • RdRp:I279V
    • Deletions
    GPC:64-70
    Insertions
    ins_GPC:52:PLTSDLP

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