TB-Profiler result

Run: SRR23861966
Summary

Run ID: SRR23861966

Sample name:

Date: 12-04-2023 12:39:23

Number of reads: 5181124

Percentage reads mapped: 99.81

Strain: lineage4.8

Drug-resistance: RR-TB

Download CSV Download TXT Download PDF Download JSON
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Rifampicin R rpoB p.Lys446Thr (0.14)
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 1.0
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 761143 p.Lys446Thr missense_variant 0.14 rifampicin
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
mshA 576626 p.Thr427Pro missense_variant 0.21
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 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
fbiD 3339719 p.Leu201Arg missense_variant 0.2
fbiD 3339726 c.609A>T synonymous_variant 0.28
fbiD 3339734 p.Ala206Gly missense_variant 0.22
fbiD 3339740 p.Ala208Gly missense_variant 0.27
fbiD 3339744 c.627A>T synonymous_variant 0.33
fbiD 3339746 p.Ala210Gly missense_variant 0.41
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
whiB7 3568437 c.243T>C synonymous_variant 0.18
whiB7 3568441 p.Lys80Thr missense_variant 0.13
rpoA 3878591 c.-84C>G upstream_gene_variant 0.17
rpoA 3878597 c.-90G>C upstream_gene_variant 0.17
rpoA 3878609 c.-102T>G upstream_gene_variant 0.21
rpoA 3878613 c.-106A>C upstream_gene_variant 0.36
rpoA 3878618 c.-111A>C upstream_gene_variant 0.43
rpoA 3878637 c.-130G>C upstream_gene_variant 0.2
rpoA 3878648 c.-141C>G upstream_gene_variant 0.25
rpoA 3878653 c.-146A>C upstream_gene_variant 0.14
embC 4240413 p.Leu184Arg missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0