TB-Profiler result

Run: SRR13837625
Summary

Run ID: SRR13837625

Sample name:

Date: 2024-10-05T13:01:39.435679

Number of reads: 293818

Percentage reads mapped: 95.0

Median coverage: 10.0

Strain: lineage4.9

Spoligotype:

Drug-resistance: Sensitive

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4 Euro-American None 1.0
lineage4.9 Euro-American (H37Rv-like) None 1.0
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin
isoniazid
ethambutol
pyrazinamide
streptomycin
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
cycloserine
ethionamide
clofazimine
para-aminosalicylic_acid
delamanid
bedaquiline
linezolid
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
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
fgd1 490771 c.-12T>G upstream_gene_variant 1.0 pretomanid
delamanid
clofazimine
rpoB 761989 p.Ala728Val missense_variant 1.0 rifampicin
rpoC 764514 p.Phe382Tyr missense_variant 1.0 rifampicin
rpoC 765936 p.Ala856Gly missense_variant 1.0 rifampicin
rplC 800132 c.-677C>G upstream_gene_variant 1.0 linezolid
rrl 1475718 n.2061T>G non_coding_transcript_exon_variant 1.0 capreomycin
linezolid
tlyA 1918168 p.Phe77Leu missense_variant 1.0 capreomycin
bacA 2063041 p.Arg563Pro missense_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
ndh 2103307 c.-265A>G upstream_gene_variant 1.0 isoniazid
delamanid
ethionamide
kasA 2518023 c.-92C>T upstream_gene_variant 1.0 isoniazid
eis 2715279 c.54A>G synonymous_variant 1.0 kanamycin
amikacin
folC 2747689 c.-91C>T upstream_gene_variant 1.0 para-aminosalicylic_acid
fbiD 3339289 p.Ser58Ala missense_variant 1.0 pretomanid
delamanid
clofazimine
clpC1 4038389 c.2316G>C synonymous_variant 1.0 pyrazinamide
glpK 4139633 c.123C>A synonymous_variant 1.0 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
isoniazid Not assoc w R - Interim
streptomycin Not assoc w R - Interim
rifampicin Not assoc w R - Interim
ethambutol Not assoc w R - Interim
embC 4241920 p.Asp686Glu missense_variant 1.0 ethambutol