TB-Profiler result

Run: SRR5007188
Summary

Run ID: SRR5007188

Sample name:

Date: 2024-10-04T23:43:49.511954

Number of reads: 97414

Percentage reads mapped: 4.56

Median coverage: 3.0

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 0.96
lineage4.9 Euro-American (H37Rv-like) None 0.96
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
rpoC 762434 c.-936T>C upstream_gene_variant 0.7 rifampicin
rpoC 763660 c.291T>G synonymous_variant 0.7 rifampicin Not assoc w R - Interim
rpoC 763675 c.306C>G synonymous_variant 0.7 rifampicin Not assoc w R - Interim
rpoC 763696 c.327T>C synonymous_variant 0.67 rifampicin Not assoc w R - Interim
rpoC 763702 c.333C>G synonymous_variant 0.67 rifampicin Not assoc w R - Interim
rpoC 763717 c.348T>C synonymous_variant 0.7 rifampicin Not assoc w R - Interim
rpoC 763723 c.354G>C synonymous_variant 0.73 rifampicin
rpoC 763774 c.405G>C synonymous_variant 0.6 rifampicin
rpoC 765529 c.2160C>T synonymous_variant 0.7 rifampicin
rpoC 765784 c.2415C>G synonymous_variant 0.7 rifampicin
rpoC 765787 c.2418C>T synonymous_variant 0.7 rifampicin
rpoC 765793 c.2424C>G synonymous_variant 0.7 rifampicin
rpoC 765796 c.2427C>T synonymous_variant 0.7 rifampicin
rpoC 765811 c.2442T>C synonymous_variant 0.7 rifampicin Not assoc w R - Interim
rpoC 765814 c.2445A>G synonymous_variant 0.7 rifampicin Not assoc w R - Interim
rpoC 765826 c.2457T>C synonymous_variant 0.7 rifampicin Not assoc w R - Interim
rpoC 765892 c.2523T>C synonymous_variant 0.6 rifampicin Not assoc w R - Interim
rpoC 765982 c.2613C>G synonymous_variant 0.6 rifampicin
Rv2477c 2783116 c.927T>C synonymous_variant 0.6 kanamycin
levofloxacin
moxifloxacin
streptomycin
rifampicin
ethambutol
amikacin