TB-Profiler result

Run: SRR23861972

Summary

Run ID: SRR23861972

Sample name:

Date: 13-04-2023 19:28:17

Number of reads: 4809897

Percentage reads mapped: 99.66

Strain: lineage4.8

Drug-resistance: Sensitive


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
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
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 576082 p.Asp245Glu missense_variant 0.15
mshA 576093 p.Pro249Arg missense_variant 0.23
mshA 576100 p.Asp251Glu missense_variant 0.19
mshA 576116 p.Ala257Pro missense_variant 0.21
rpoC 765369 p.Thr667Met missense_variant 1.0
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 0.99
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3083 3448500 c.-4A>G upstream_gene_variant 1.0
Rv3083 3448501 c.-3G>T upstream_gene_variant 1.0
whiB7 3568416 p.Lys88His missense_variant 0.14
whiB7 3568428 c.252A>C synonymous_variant 0.16
whiB7 3568431 c.249C>G synonymous_variant 0.15
fbiA 3640413 c.-130T>G upstream_gene_variant 0.32
clpC1 4040235 p.Gly157Ala missense_variant 0.14
clpC1 4040242 p.Thr155Pro missense_variant 0.2
clpC1 4040249 p.Glu152Asp missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246542 p.Ser10Thr missense_variant 0.14
embB 4246552 p.Asn13Lys missense_variant 0.15
embB 4247016 p.Ser168Trp missense_variant 0.21
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338630 c.-109C>A upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0