TB-Profiler result

Run: SRR5485614
Summary

Run ID: SRR5485614

Sample name:

Date: 2024-03-25T17:15:43.732730

Number of reads: 77296

Percentage reads mapped: 99.17

Median coverage: 0.0

Strain: lineage4.9

Spoligotype:

Drug-resistance: RR-TB

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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 rpoB p.His445Asp Assoc w R
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
rpoB 761139 p.His445Asp missense_variant 0.62 rifampicin 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
rpoB 761096 c.1290G>C synonymous_variant 0.31 rifampicin
rpoB 761097 c.1291_1292delAGinsTC synonymous_variant 0.31 rifampicin
rpoB 761102 c.1296A>G synonymous_variant 0.31 rifampicin
rpoB 761132 c.1326G>T synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoB 761133 c.1327T>C synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoB 761150 c.1344A>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoB 761165 c.1359G>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoB 761180 c.1374A>C synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoB 761189 c.1383T>G synonymous_variant 0.3 rifampicin
rpoB 761196 c.1390C>T synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 1.0 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance