TB-Profiler result

Run: ERR1034945
Summary

Run ID: ERR1034945

Sample name:

Date: 20-10-2023 23:29:40

Number of reads: 11698926

Percentage reads mapped: 99.73

Strain: lineage4.4.1.2;lineage4.3.3

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 0.51
lineage4.4 Euro-American S;T None 0.49
lineage4.4.1 Euro-American (S-type) S;T None 0.48
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.52
lineage4.4.1.2 Euro-American T1 None 0.48
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 8040 p.Gly247Ser missense_variant 0.47
gyrA 9304 p.Gly668Asp missense_variant 0.99
rpoC 764995 c.1626C>G synonymous_variant 0.49
rpoC 766051 c.2682G>A synonymous_variant 0.5
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 1476056 n.2399G>A non_coding_transcript_exon_variant 0.54
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 0.51
PPE35 2167770 p.Ser948Ile missense_variant 0.54
PPE35 2169840 p.Gly258Asp missense_variant 0.53
Rv1979c 2223051 p.Glu38Asp missense_variant 0.53
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 0.48
pepQ 2860213 p.Pro69Leu missense_variant 0.45
Rv2752c 3065824 p.Pro123Leu missense_variant 0.51
thyA 3073868 p.Thr202Ala missense_variant 0.51
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 0.53
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 0.53
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249012 c.2499G>A synonymous_variant 0.51
whiB6 4338441 p.Tyr27* stop_gained 0.52
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.5