TB-Profiler result

Run: SRR13837666
Summary

Run ID: SRR13837666

Sample name:

Date: 2024-10-04T18:09:45.038135

Number of reads: 296598

Percentage reads mapped: 97.92

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
nusG 734793 c.540C>G synonymous_variant 1.0 rifampicin
rplC 800119 c.-690G>C upstream_gene_variant 1.0 linezolid
sigE 1364621 p.Ala70Val missense_variant 1.0 pyrazinamide
rrs 1472361 n.516C>G non_coding_transcript_exon_variant 0.9 kanamycin
capreomycin
streptomycin
amikacin
tlyA 1918366 p.Ala143Pro missense_variant 1.0 capreomycin
ndh 2101701 c.1341delG frameshift_variant 1.0 isoniazid Uncertain significance
delamanid Uncertain significance
ethionamide Uncertain significance
ndh 2103327 c.-285C>A upstream_gene_variant 1.0 isoniazid
delamanid
ethionamide
eis 2714749 p.Val195Ala missense_variant 1.0 kanamycin
amikacin
Rv2752c 3067080 c.-889G>C upstream_gene_variant 1.0 levofloxacin
moxifloxacin
isoniazid
rifampicin
ethambutol
lpqB 3624325 p.Thr196Pro missense_variant 1.0 rifampicin
bedaquiline
embC 4242797 p.Asp979His missense_variant 1.0 ethambutol