TB-Profiler result

Run: 93d61f3a-a0f3-4823-bcb5-d5ae27fcd2ce
Summary

Run ID: 93d61f3a-a0f3-4823-bcb5-d5ae27fcd2ce

Sample name:

Date: 21-01-2023 07:58:42

Number of reads: 67252

Percentage reads mapped: 96.26

Median coverage: 0

Strain: lineage2.2

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
lineage2.2 East-Asian (Beijing) RD105;RD207 0.98
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.Met306Val Assoc w R
pyrazinamide pncA p.Gln10Lys Uncertain significance
moxifloxacin gyrA p.Asp94Gly Assoc w R
levofloxacin gyrA p.Asp94Gly Assoc w R
bedaquiline
delamanid
pretomanid
linezolid
streptomycin
amikacin eis c.-14C>T Assoc w R
kanamycin eis c.-14C>T Assoc w R
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.Asp94Gly missense_variant 0.97 ofloxacin Uncertain significance
moxifloxacin Assoc w R
levofloxacin Assoc w R
fluoroquinolones Uncertain significance
ciprofloxacin Uncertain significance
rpoB 761155 p.Ser450Leu missense_variant 0.97 rifampicin Assoc w R
katG 2155168 p.Ser315Thr missense_variant 0.99 isoniazid Assoc w R
pncA 2289214 p.Gln10Lys missense_variant 0.99 pyrazinamide Uncertain significance
eis 2715346 c.-14C>T upstream_gene_variant 0.85 kanamycin Assoc w R
amikacin Assoc w R
embB 4247429 p.Met306Val missense_variant 0.98 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 0.99 fluoroquinolones
moxifloxacin Uncertain significance
levofloxacin Uncertain significance
ciprofloxacin
ofloxacin
gyrA 7585 p.Ser95Thr missense_variant 0.99 fluoroquinolones
moxifloxacin Uncertain significance
levofloxacin Uncertain significance
ciprofloxacin
ofloxacin
gyrA 9304 p.Gly668Asp missense_variant 0.94 fluoroquinolones
moxifloxacin Uncertain significance
levofloxacin Uncertain significance
ciprofloxacin
ofloxacin
rpoC 763031 c.-339T>C upstream_gene_variant 0.95 rifampicin
rrs 1471659 n.-187C>T upstream_gene_variant 0.93 linezolid
kanamycin
capreomycin
amikacin
aminoglycosides
streptomycin
rpsA 1834177 c.636A>C synonymous_variant 0.81 pyrazinamide
tlyA 1917972 c.33A>G synonymous_variant 0.98 capreomycin
katG 2154724 p.Arg463Leu missense_variant 0.88 isoniazid Uncertain significance
ribD 2987091 p.Val85Met missense_variant 0.94 para-aminosalicylic_acid
ald 3087246 p.Gln143* stop_gained 0.83 cycloserine
ethR 4327941 p.Ser131Arg missense_variant 0.99 ethionamide Uncertain significance
gid 4407588 c.615A>G synonymous_variant 0.98 streptomycin
gid 4407927 p.Glu92Asp missense_variant 0.96 streptomycin Uncertain significance