TB-Profiler result

Run: ERR216914
Summary

Run ID: ERR216914

Sample name:

Date: 20-10-2023 22:55:53

Number of reads: 2591700

Percentage reads mapped: 99.5

Strain: lineage4.4.1.2;lineage4.3.4.2.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.25
lineage4.4 Euro-American S;T None 0.75
lineage4.4.1 Euro-American (S-type) S;T None 0.78
lineage4.3.4 Euro-American (LAM) LAM RD174 0.2
lineage4.4.1.2 Euro-American T1 None 0.72
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 0.24
lineage4.3.4.2.1 Euro-American (LAM) LAM11 RD174 0.26
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 0.32
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 0.22
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
ndh 2102990 p.Val18Ala missense_variant 0.63
PPE35 2167770 p.Ser948Ile missense_variant 0.76
PPE35 2169840 p.Gly258Asp missense_variant 0.63
PPE35 2170066 p.Ala183Thr missense_variant 0.86
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860213 p.Pro69Leu missense_variant 0.75
ribD 2986868 c.30T>C synonymous_variant 0.76
thyX 3067754 c.192C>T synonymous_variant 0.59
thyA 3073868 p.Thr202Ala missense_variant 0.33
ald 3086738 c.-82C>T upstream_gene_variant 0.22
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 0.73
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3840719 c.702A>G synonymous_variant 0.37
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249012 c.2499G>A synonymous_variant 0.76
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.36