TB-Profiler result

Run: ERR11465114
Summary

Run ID: ERR11465114

Sample name:

Date: 09-01-2024 18:27:27

Number of reads: 7263032

Percentage reads mapped: 99.67

Strain: lineage4.3.4.2.1;lineage4.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.62
lineage4.1 Euro-American T;X;H None 0.4
lineage4.3.4 Euro-American (LAM) LAM RD174 0.63
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 0.6
lineage4.3.4.2.1 Euro-American (LAM) LAM11 RD174 0.63
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
gyrB 6140 p.Val301Leu missense_variant 0.5
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 0.99
gyrA 8694 c.1393C>T synonymous_variant 0.41
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.18
rpoC 764995 c.1626C>G synonymous_variant 0.58
rpoC 765150 p.Gly594Glu missense_variant 0.37
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
rpsA 1834348 c.807T>C synonymous_variant 0.43
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyX 3067248 p.Thr233Ile missense_variant 0.66
thyA 3073868 p.Thr202Ala missense_variant 0.6
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475346 p.Leu447Arg missense_variant 0.37
Rv3236c 3612009 p.Ala370Thr missense_variant 0.6
Rv3236c 3612515 p.Arg201His missense_variant 0.35
alr 3840719 c.702A>G synonymous_variant 0.62
clpC1 4038287 c.2418C>T synonymous_variant 0.6
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.37
embB 4249408 c.2895G>A synonymous_variant 0.46
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408031 p.Leu58Phe missense_variant 0.35
gid 4408156 p.Leu16Arg missense_variant 0.62