TB-Profiler result

Run: 974778fb-e911-43ad-bcd0-165698b8b2be
Summary

Run ID: 974778fb-e911-43ad-bcd0-165698b8b2be

Sample name:

Date: 16-10-2023 10:26:51

Number of reads: 3978

Percentage reads mapped: 99.05

Median coverage: 0

Strain:

Spoligotype:

Drug-resistance: Pre-XDR-TB

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin rpoB p.Ser450Leu Assoc w R
isoniazid katG p.Ser315Thr Assoc w R
ethambutol embB p.Met306Ile Assoc w R
pyrazinamide pncA p.Ala171Pro Uncertain significance
moxifloxacin gyrA p.Asp94Ala Assoc w R
levofloxacin gyrA p.Asp94Ala Assoc w R
bedaquiline
delamanid
pretomanid
linezolid
streptomycin rpsL p.Lys43Arg Assoc w R
amikacin
kanamycin
capreomycin
clofazimine
ethionamide
para-aminosalicylic_acid
cycloserine
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence Comment
gyrA 7582 p.Asp94Ala missense_variant 0.98 ofloxacin Uncertain significance
moxifloxacin Assoc w R
levofloxacin Assoc w R
fluoroquinolones Uncertain significance
ciprofloxacin Uncertain significance
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin Assoc w R
rpsL 781687 p.Lys43Arg missense_variant 0.91 streptomycin Assoc w R
katG 2155168 p.Ser315Thr missense_variant 0.99 isoniazid Assoc w R
pncA 2288731 p.Ala171Pro missense_variant 0.85 pyrazinamide Uncertain significance
embB 4247431 p.Met306Ile missense_variant 0.95 ethambutol Assoc w R
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence
gyrA 7362 p.Glu21Gln missense_variant 0.98 fluoroquinolones
moxifloxacin Uncertain significance
levofloxacin Uncertain significance
ciprofloxacin
ofloxacin
gyrA 7585 p.Ser95Thr missense_variant 0.98 fluoroquinolones
moxifloxacin Uncertain significance
levofloxacin Uncertain significance
ciprofloxacin
ofloxacin
fgd1 491742 c.960T>C synonymous_variant 0.92 delamanid
rpoB 761293 p.Val496Ala missense_variant 0.97 rifampicin Uncertain significance
mmpR5 779127 c.139dupG frameshift_variant 1.0 clofazimine Uncertain significance
bedaquiline Uncertain significance
rpsL 781395 c.-165T>C upstream_gene_variant 0.86 streptomycin Uncertain significance
tlyA 1917972 c.33A>G synonymous_variant 0.99 capreomycin
embA 4243346 c.114A>G synonymous_variant 1.0 ethambutol
embA 4243460 c.228C>T synonymous_variant 0.97 ethambutol
gid 4407588 c.615A>G synonymous_variant 1.0 streptomycin
gid 4407927 p.Glu92Asp missense_variant 0.95 streptomycin Uncertain significance