TB-Profiler result

Run: SRR25827302

Summary

Run ID: SRR25827302

Sample name:

Date: 21-03-2024 03:03:09

Number of reads: 7157927

Percentage reads mapped: 99.41

Strain: lineage4.8

Drug-resistance: MDR-TB


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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Rifampicin R rpoB c.1312_1314delAAC (0.98)
Isoniazid R katG p.Ser315Asn (1.00)
Ethambutol R embB p.Gly406Ala (0.99)
Pyrazinamide R pncA c.391dupG (0.99), pncA c.391dupG (0.99)
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 0.98
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
rpoB 761114 c.1312_1314delAAC conservative_inframe_deletion 0.98 rifampicin
katG 2155168 p.Ser315Asn missense_variant 1.0 isoniazid
pncA 2288850 c.391dupG frameshift_variant 0.99 pyrazinamide, pyrazinamide
embB 4247730 p.Gly406Ala missense_variant 0.99 ethambutol
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 1.0
rpoC 767302 c.3933C>T synonymous_variant 0.98
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.98
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 0.99
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
fbiB 3642713 c.1179G>A synonymous_variant 0.98
clpC1 4039729 p.Asp326Asn missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245131 c.1899G>A synonymous_variant 0.98
embB 4247028 p.Leu172Arg missense_variant 0.24
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408016 c.186delT frameshift_variant 0.97