TB-Profiler result

Run: SRR23861739

Summary

Run ID: SRR23861739

Sample name:

Date: 12-04-2023 02:12:47

Number of reads: 6380929

Percentage reads mapped: 99.55

Strain: lineage4.5

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
lineage4.5 Euro-American H;T RD122 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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7892 c.591G>A synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576456 p.Val370Gly missense_variant 0.19
ccsA 620029 c.139C>T synonymous_variant 1.0
rpoB 761687 c.1881C>T synonymous_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
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170568 p.Ile15Met missense_variant 1.0
Rv1979c 2222073 c.1092G>T synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289790 c.-549C>T upstream_gene_variant 1.0
eis 2715215 p.Val40Met missense_variant 1.0
folC 2747561 p.Ser13* stop_gained 1.0
fbiD 3339744 c.627A>T synonymous_variant 0.42
fbiD 3339746 p.Ala210Gly missense_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568441 p.Lys80Thr missense_variant 0.15
alr 3840206 c.1215T>G synonymous_variant 0.99
rpoA 3878575 c.-68C>T upstream_gene_variant 1.0
rpoA 3878613 c.-106A>C upstream_gene_variant 0.33
rpoA 3878629 c.-122A>T upstream_gene_variant 0.23
rpoA 3878637 c.-130G>C upstream_gene_variant 0.2
rpoA 3878653 c.-146A>C upstream_gene_variant 0.18
clpC1 4038318 p.Pro796Leu missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247007 p.Lys165Thr missense_variant 0.17
embB 4247015 p.Ser168Ala missense_variant 0.21
embB 4247028 p.Leu172Arg missense_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408133 p.Glu24Gln missense_variant 1.0