PP_000RFMT.2

Display Name: North_Macedonia/PP_000RFMT.2/2024-01-01
Jakimovski, D.; Banovic, P.; Zana, B.; Abraham, A.; Lanszki, Z.; Gorfol, T.; Tauber, Z.; Kuczmog, A.; Banyai, K.; Kemenesi, G.

Submission details

Submission ID
PQ031238.1.L/PQ031239.1.M/PQ031240.1.S
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-09-26 15:01:57 UTC
Date released
2024-09-26 15:22:15 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2024-08-27 12:11insdc_ingest_userOPEN
Data use terms URL
https://pathoplexus.org/about/terms-of-use/open-data

Authors

Author affiliations
University of Pecs, Szentagothai Research Center

Alignment states and QC metrics L

Completeness L
45.04%
Length L
10540
Total ambiguous nucs L
0
Total deleted nucs L
0
Total frame shifts L
0
Total inserted nucs L
0
Total SNPs L
593
Total unknown nucs L
5087

Alignment states and QC metrics M

Completeness M
84.25%
Length M
4974
Total ambiguous nucs M
0
Total deleted nucs M
9
Total frame shifts M
0
Total inserted nucs M
6
Total SNPs M
841
Total unknown nucs M
456

Alignment states and QC metrics S

Completeness S
78.11%
Length S
1306
Total ambiguous nucs S
0
Total deleted nucs S
0
Total frame shifts S
0
Total inserted nucs S
0
Total SNPs S
181
Total unknown nucs S
0

Sample details

Collection country
North Macedonia
Collection date
2024-01-01
Isolate name
Arachinovo/North Macedonia-1/2024

Host

Host name scientific
Homo sapiens
Host taxon id
9606

INSDC

INSDC accession L
PQ031238.1
INSDC accession M
PQ031239.1
INSDC accession S
PQ031240.1
NCBI release date
2024-07-24

Nucleotide mutations

Substitutions

L

  • L:C805T
  • L:T814C
  • L:A817G
  • L:G823A
  • L:T826C
  • L:C835T
  • L:T845C
  • L:A847G
  • L:T853C
  • L:G880A
  • L:A892C
  • L:A900G
  • L:C904T
  • L:A911G
  • L:T929C
  • L:G931A
  • L:T937C
  • L:C941T

    • M

  • M:G50A
  • M:A51G
  • M:T67C
  • M:T68C
  • M:A69G
  • M:T71A
  • M:C74T
  • M:G76C
  • M:A80G
  • M:T83C
  • M:G84A
  • M:T86C
  • M:C92T
  • M:T100C
  • M:T102C
  • M:C103T
  • M:A108G
  • M:A112G

    • S

  • S:T49C
  • S:A50T
  • S:G54A
  • S:T79C
  • S:A81G
  • S:G99A
  • S:G100A
  • S:A109G
  • S:C115T
  • S:A121G
  • S:G134A
  • S:C142T
  • S:T157C
  • S:C166T
  • S:G169A
  • S:G171A
  • S:T175A
  • S:C178A
    • Deletions
    M:165-167, M:318-323
    Insertions
    ins_M:335:ACA, ins_M:158:CAG

    Amino acid mutations

    Substitutions

    GPC

  • GPC:I3T
  • GPC:S4L
  • GPC:M6V
  • GPC:Y7C
  • GPC:A8F
  • GPC:C11Y
  • GPC:C15L
  • GPC:E19G
  • GPC:T20A
  • GPC:S23Q
  • GPC:H24S
  • GPC:E26A
  • GPC:R28E
  • GPC:K31G
  • GPC:D33N
  • GPC:M35T
  • GPC:T37A
  • GPC:D40T

    • NP

  • NP:N9S
  • NP:R15K
  • NP:V27M
  • NP:S39N
  • NP:R45K
  • NP:A100S
  • NP:S109N
  • NP:T111A
  • NP:T124A
  • NP:G125N
  • NP:G185S
  • NP:H195R
  • NP:D199E
  • NP:I246V
  • NP:K265R
  • NP:R270K
  • NP:S301G
  • NP:A307P

    • RdRp

  • RdRp:K275R
  • RdRp:I279V
  • RdRp:V352I
  • RdRp:S427N
  • RdRp:G449D
  • RdRp:N453S
  • RdRp:I505T
  • RdRp:A508I
  • RdRp:K522R
  • RdRp:A719V
  • RdRp:R764K
  • RdRp:K769E
  • RdRp:R770K
  • RdRp:D771E
  • RdRp:P774L
  • RdRp:E776G
  • RdRp:I783A
  • RdRp:T784V
    • Deletions
    GPC:77, GPC:113-119, GPC:123, GPC:124
    Insertions
    ins_GPC:103:NMNS, ins_GPC:100:ATSTS