TB-Profiler result

Run: SRR13837611
Summary

Run ID: SRR13837611

Sample name:

Date: 2024-10-05T08:58:09.020328

Number of reads: 293813

Percentage reads mapped: 99.0

Median coverage: 10.0

Strain: lineage4.9

Spoligotype:

Drug-resistance: Sensitive

Download CSV Download TXT Download JSON
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
gyrB 5149 c.-91G>C upstream_gene_variant 1.0 levofloxacin
moxifloxacin
gyrA 8436 p.Tyr379Asn missense_variant 1.0 levofloxacin
moxifloxacin
ccsA 619765 c.-126G>A upstream_gene_variant 1.0 kanamycin
capreomycin
amikacin
mmpL5 776710 p.Cys591Ser missense_variant 1.0 bedaquiline
clofazimine
mmpL5 777625 p.Gln286Lys missense_variant 1.0 bedaquiline
clofazimine
mmpS5 778811 p.Phe32Ser missense_variant 1.0 bedaquiline
clofazimine
embR 1416901 c.447G>C synonymous_variant 1.0 ethambutol
rrl 1476589 n.2932G>A non_coding_transcript_exon_variant 1.0 capreomycin
linezolid
bacA 2063516 p.Val405Ile missense_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
ribD 2987369 c.531G>A synonymous_variant 1.0 para-aminosalicylic_acid
Rv3236c 3612013 c.1104A>T synonymous_variant 1.0 pyrazinamide
Rv3236c 3612032 p.Met362Arg missense_variant 1.0 pyrazinamide
Rv3236c 3613624 c.-508T>A upstream_gene_variant 1.0 pyrazinamide
embC 4240425 p.Arg188Pro missense_variant 1.0 ethambutol
embC 4240477 c.615C>A synonymous_variant 1.0 ethambutol
embA 4244214 p.Ala328Ser missense_variant 1.0 ethambutol
embB 4247198 p.Thr229Pro missense_variant 1.0 ethambutol
aftB 4268115 p.Leu241Arg missense_variant 1.0 ethambutol
whiB6 4338567 c.-46C>A upstream_gene_variant 1.0 kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance