TB-Profiler result

Run: SRR23862011
Summary

Run ID: SRR23862011

Sample name:

Date: 12-04-2023 14:52:45

Number of reads: 6678157

Percentage reads mapped: 99.53

Strain: lineage4

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
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 6931 c.-371A>G upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9098 c.1797G>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576100 p.Asp251Glu missense_variant 0.22
mshA 576456 p.Val370Gly missense_variant 0.2
mshA 576626 p.Thr427Pro missense_variant 0.17
mshA 576732 p.Asp462Gly missense_variant 1.0
ccsA 619907 p.Val6Ala 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 1475780 n.2123A>G non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168214 p.Thr800Arg missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339744 c.627A>T synonymous_variant 0.44
Rv3083 3449582 p.Val360Ala missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568425 c.255T>G synonymous_variant 0.25
whiB7 3568428 c.252A>G synonymous_variant 0.3
whiB7 3568441 p.Lys80Thr missense_variant 0.14
rpoA 3878608 c.-101C>G upstream_gene_variant 0.45
rpoA 3878613 c.-106A>C upstream_gene_variant 0.55
rpoA 3878615 c.-108C>A upstream_gene_variant 0.18
rpoA 3878618 c.-111A>C upstream_gene_variant 0.45
rpoA 3878629 c.-122A>C upstream_gene_variant 0.18
rpoA 3878637 c.-130G>C upstream_gene_variant 0.17
rpoA 3878640 c.-133G>C upstream_gene_variant 0.21
rpoA 3878653 c.-146A>C upstream_gene_variant 0.18
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246974 p.His154Pro missense_variant 0.17
embB 4247010 p.Asp166Ala missense_variant 0.16
embB 4247015 p.Ser168Ala missense_variant 0.27
whiB6 4338205 p.Val106Gly missense_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0