TB-Profiler result

Run: SRR20958131

Summary

Run ID: SRR20958131

Sample name:

Date: 17-01-2024 12:42:04

Number of reads: 13861512

Percentage reads mapped: 99.84

Strain: lineage4.9;lineage4.8

Drug-resistance: Sensitive


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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Rifampicin
Isoniazid
Ethambutol
Pyrazinamide
Streptomycin
Fluoroquinolones
Moxifloxacin
Ofloxacin
Levofloxacin
Ciprofloxacin
Aminoglycosides
Amikacin
Capreomycin
Kanamycin
Cycloserine
Ethionamide
Clofazimine
Para-aminosalicylic_acid
Delamanid
Bedaquiline
Linezolid
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.42
lineage4.9 Euro-American (H37Rv-like) T1 None 0.6
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
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
gyrA 7362 p.Glu21Gln missense_variant 0.4
mmpL5 775639 p.Ile948Val missense_variant 0.46
rpsL 781395 c.-165T>C upstream_gene_variant 0.41
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.44
tlyA 1917972 c.33A>G synonymous_variant 0.42
Rv1979c 2223293 c.-129A>G upstream_gene_variant 0.41
ald 3087141 c.322T>C synonymous_variant 0.46
embA 4242643 c.-590C>T upstream_gene_variant 0.38
embB 4246277 c.-237G>A upstream_gene_variant 0.41
embB 4247028 p.Leu172Arg missense_variant 0.18
embB 4247039 p.Phe176Val missense_variant 0.13
ethA 4328212 c.-740delC upstream_gene_variant 0.44
whiB6 4338595 c.-75delG upstream_gene_variant 0.41
gid 4407945 c.258C>T synonymous_variant 0.42