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_02YSRR5.1

South_Africa/LOC_02YSRR5.1/2025-10-03
J. Maritz, D. Goedhals, J. Pekeur, T. Maponga, M. Claassen, T. Stander, G. van Zyl, W. Preiser, L. M. Hofstra, L. Chabuka, K. W. Liedeman, S. De Villiers, V. Wentzel, L. Singh, T. Ramakutoane, H. Tegally, E. Wilkinson & T. de Oliveira

S, Cape Town, Western Cape

Sample details

Collection date
2025-10-03
Sampling location
South Africa (Northern Cape; Kimberley; Kimberley)
Isolate name
hMPV/B/SouthAfrica/PATH-CERI-C071137/2025

Data use terms

Data use terms
OPEN
Data use terms URL

Lineage

Lineage
B1

INSDC

INSDC accession
BioProject accession
BioSample accession
NCBI release date
2026-02-17
NCBI update date
2026-02-18

Host

Host

Submission details

Submission ID
OZ412861.1
Submitting group
Date submitted
2026-09-29 19:00:11 UTC
Date released
2026-09-29 19:10:43 UTC
Earliest release date
2026-02-17

Alignment and QC

Length
13115 (98.6%)
# of SNPs
2423
# of inserted bases
37
# of deleted bases
86
# of frame shifts
2
# of stop codons
3
Frame shifts
G:143-160(nt:6671-6725),G:216-237(nt:6890-6957)
Stop Codons
SH:177,SH:179,SH:180

Nucleotide mutations

Mutations called relative to the NC_039199.1 reference

Substitutions
  • G11A
  • A12G
  • G34A
  • G36A
  • G63A
  • T70C
  • A72G
  • G81A
  • G105A
  • G126A
  • T129C
  • C150T
  • G177T
  • G195T
  • T198C
  • G199A
  • T207C
  • G208A
Deletions
24, 3009, 4684-4722, 6053, 6110-6113, 6196, 6210-6215, 6667-6670, 6889, 6981-6983, 7012, 7030-7033, 7045-7060, 7144-7147
Insertions
ins_5470:TAAAAATAA, ins_5813:AGA, ins_6693:CATAGA, ins_6725:GGGGAAGAGGAAAAGA, ins_6945:AT, ins_6965:C

Amino acid substitutions

Substitutions called relative to the NC_039199.1 reference

Substitutions

F

  • F:V6M
  • F:F9I
  • F:A61T
  • F:R82K
  • F:V122I
  • F:T135N
  • F:N139G
  • F:K143Q
  • F:D167E
  • F:R175S
  • F:K179R
  • F:N233Y
  • F:F258I
  • F:V286I
  • F:G294E
  • F:K296N
  • F:Q312K
  • F:K348R

G

  • G:K4R
  • G:T10A
  • G:L14F
  • G:R17K
  • G:V18I
  • G:V22I
  • G:A23R
  • G:R24S
  • G:K26R
  • G:F28Y
  • G:K29R
  • G:N30Y
  • G:S32T
  • G:V34I
  • G:I38L
  • G:I43M
  • G:Y48F
  • G:I50V

L

  • L:L4F
  • L:N5C
  • L:I50V
  • L:I55V
  • L:K61R
  • L:N65M
  • L:S66T
  • L:I75V
  • L:V89M
  • L:T109S
  • L:I115M
  • L:D127N
  • L:S132N
  • L:S141V
  • L:K162R
  • L:V182I
  • L:I189V
  • L:S228N

M

  • M:I23V
  • M:E103D
  • M:E111D
  • M:T156I
  • M:K237R
  • M:T241S

M2-1

  • M2-1:A5T
  • M2-1:E20D
  • M2-1:I37L
  • M2-1:R52K
  • M2-1:S88G
  • M2-1:V108T
  • M2-1:V130I
  • M2-1:R149K
  • M2-1:K160R
  • M2-1:A169T
  • M2-1:E170D
  • M2-1:S173P

M2-2

  • M2-2:E18K
  • M2-2:V22K
  • M2-2:V28S
  • M2-2:D37E
  • M2-2:A41T
  • M2-2:N55S
  • M2-2:A68T

N

  • N:A54T
  • N:A57T
  • N:I67M
  • N:S71C
  • N:R96K
  • N:I103G
  • N:N106S
  • N:D110E
  • N:A136V
  • N:M201V
  • N:D212E
  • N:H220Y
  • N:M258L
  • N:A280S
  • N:K356R
  • N:V385M
  • N:D387G
  • N:S389N
  • N:N391D

P

  • P:L19I
  • P:R28K
  • P:P30S
  • P:S35T
  • P:I39V
  • P:V46I
  • P:R57K
  • P:K60R
  • P:P61S
  • P:T62S
  • P:I63T
  • P:P64L
  • P:S65L
  • P:T72A
  • P:K74N
  • P:G75S
  • P:A77T
  • P:T80I

SH

  • SH:I2K
  • SH:K14E
  • SH:T17N
  • SH:H18Q
  • SH:I22T
  • SH:D25K
  • SH:L44F
  • SH:I50V
  • SH:I61A
  • SH:T66N
  • SH:D72V
  • SH:S73T
  • SH:S74K
  • SH:S75L
  • SH:V80T
  • SH:T82I
  • SH:K83R
  • SH:T84P
Deletions

G

G:141, G:142, G:215
Insertions

G

ins_G:137:KSTX, ins_G:189:TT

SH

ins_SH:107:D

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