TB-Profiler result

Run: SRR21798486
Summary

Run ID: SRR21798486

Sample name:

Date: 22-01-2024 22:29:38

Number of reads: 1458479

Percentage reads mapped: 99.71

Strain: lineage4.8

Drug-resistance: HR-TB

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Rifampicin
Isoniazid R katG p.Ser315Thr (1.00)
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
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
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
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 0.94
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167965 p.Ala883Gly missense_variant 0.2
PPE35 2167967 c.2646A>C synonymous_variant 0.19
PPE35 2168149 p.Pro822Ser missense_variant 0.98
PPE35 2169902 p.Leu237Phe missense_variant 0.21
PPE35 2170147 p.Ser156Ala missense_variant 0.18
PPE35 2170157 p.Ala152Ser missense_variant 0.19
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ribD 2986912 p.Asp25Ala missense_variant 1.0
Rv3083 3448322 c.-182G>A upstream_gene_variant 1.0
fprA 3474144 p.Trp46Cys missense_variant 0.12
alr 3841546 c.-126C>A upstream_gene_variant 0.13
rpoA 3878707 c.-200C>T upstream_gene_variant 1.0
embC 4240801 c.939C>T synonymous_variant 0.12
embC 4240803 p.Tyr314Phe missense_variant 0.13
embC 4241673 p.Ala604Gly missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0