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_001HA2J.1

Guinea/LOC_001HA2J.1/2024-12-13
E. V. Naidenova, Y. M. Krasnov, K. S. Zakharov, M. Y. Kartashov, A. V. Shipovalov, A. B. Ibrahim, E. A. Basov, A. P. Smolina, N. P. Guseva, T. A. Polunina, N. V. Kotova, S. D. Katyshev, S. Boumbaly & M. S. Traore

Russian Antiplague Research Institute 'Microbe', Microbiology

Sample details

Collection date
2024-12-13
Earliest release date
2025-08-09
Sampling location
Guinea
Isolate name
742

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2026-03-21 21:26insdc_ingest_userOPEN
Data use terms URL

INSDC

NCBI release date
2025-08-09
INSDC accession L
INSDC accession M
INSDC accession S

Submission details

Submission ID
PV987608.1.L/PV987600.1.M/PV987592.1.S
Submitting group
Date submitted
2026-03-21 21:26:50 UTC
Date released
2026-03-21 21:36:53 UTC

Host

Host

Lineage

Segment S Lineage
unassigned

Files

Annotations

Alignment and QC

Total SNPs L
257
Total inserted nucs L
3
Total unknown nucs L
1227
Length L
11970 (88.7%)
Variant L
True
Total SNPs S
127
Total deleted nucs S
6
Total unknown nucs S
209
Length S
1646 (86.3%)
Variant S
True
Total SNPs M
163
Total unknown nucs M
704
Length M
3560 (53.2%)
Variant M
True

Nucleotide mutations

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

Substitutions

L

  • G88A
  • G93A
  • A124G
  • T254A
  • A298G
  • C313T
  • T340C
  • C445T
  • G553A
  • G619A
  • C904T
  • G961A
  • A1213G
  • T1420C
  • C1495T
  • A1555G
  • T1590C
  • A1879G

M

  • A1560T
  • A1577T
  • T1586A
  • G1589A
  • G1592A
  • G1604A
  • A1628C
  • A1629C
  • C1631T
  • C1634T
  • T1637C
  • T1644C
  • T1649G
  • A1652C
  • A1655G
  • A1658G
  • C1659T
  • C1661T

S

  • G20T
  • G54A
  • C82T
  • G134A
  • C142T
  • C166T
  • G169A
  • T175C
  • C178A
  • T182C
  • G189A
  • C244T
  • G262A
  • A268C
  • G271A
  • C295T
  • C310T
  • A322C
Deletions

S

1531-1533, 1615-1617
Insertions

L

ins_6460:AAA

Amino acid substitutions

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

Substitutions

GPC

  • GPC:R490W
  • GPC:T513P
  • GPC:P523S
  • GPC:S524D
  • GPC:D525G
  • GPC:N592P
  • GPC:V598T
  • GPC:K601E
  • GPC:Y606F
  • GPC:R609K
  • GPC:T633S
  • GPC:V718A
  • GPC:L721V
  • GPC:L725F
  • GPC:T927A
  • GPC:K929R
  • GPC:K933Q
  • GPC:K944T

NP

  • NP:S109N
  • NP:D116E
  • NP:T124S
  • NP:G125N
  • NP:N150H
  • NP:H195R
  • NP:D199E
  • NP:I246V
  • NP:R270K
  • NP:S301G

RdRp

  • RdRp:S6N
  • RdRp:Y60N
  • RdRp:I505T
  • RdRp:R764K
  • RdRp:T767A
  • RdRp:L821V
  • RdRp:T830H
  • RdRp:S867Y
  • RdRp:T876C
  • RdRp:T900N
  • RdRp:E901Y
  • RdRp:E939A
  • RdRp:G1047E
  • RdRp:V1228I
  • RdRp:N1367D
  • RdRp:E1452D
  • RdRp:P1660T
  • RdRp:T1675N
Deletions
N/A
Insertions

RdRp

ins_RdRp:2128:K

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