TB-Profiler result

Run: SRR23861705
Summary

Run ID: SRR23861705

Sample name:

Date: 12-04-2023 00:15:14

Number of reads: 4450157

Percentage reads mapped: 99.54

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 576108 p.Ala254Gly missense_variant 0.19
ccsA 620029 c.139C>T synonymous_variant 1.0
rpoC 764367 p.Gly333Ala missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.21
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304463 c.1533C>T synonymous_variant 1.0
Rv1258c 1406101 p.Pro414Ser missense_variant 1.0
Rv1258c 1406899 p.Ala148Thr missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673553 p.Asp38Glu missense_variant 0.23
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102283 p.Arg254Cys missense_variant 1.0
ndh 2103222 c.-180A>G upstream_gene_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.3
PPE35 2170568 p.Ile15Met missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.17
Rv2752c 3065643 c.549C>T synonymous_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.74
fbiD 3339746 p.Ala210Gly missense_variant 0.38
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568428 c.252A>G synonymous_variant 0.21
rpoA 3878575 c.-68C>T upstream_gene_variant 1.0
rpoA 3878613 c.-106A>C upstream_gene_variant 0.31
rpoA 3878641 c.-134C>G upstream_gene_variant 0.42
clpC1 4038318 p.Pro796Leu missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.16
embB 4246584 p.Arg24Pro missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0