TB-Profiler result

Run: SRR13870364

Summary

Run ID: SRR13870364

Sample name:

Date: 03-04-2023 09:39:19

Number of reads: 1534072

Percentage reads mapped: 99.7

Strain: lineage4

Drug-resistance: XDR-TB


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
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
gyrA 7582 p.Asp94Gly missense_variant 1.0 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
mmpR5 779181 c.198dupG frameshift_variant 1.0 clofazimine, bedaquiline
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2288839 p.Thr135Pro missense_variant 1.0 pyrazinamide
embB 4247574 p.Asp354Ala missense_variant 1.0 ethambutol
ethA 4326800 c.672_673dupGC frameshift_variant 1.0 ethionamide, ethionamide
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 9304 p.Gly668Asp missense_variant 1.0
mshA 575837 c.490C>T synonymous_variant 1.0
rpoB 761889 p.Val695Leu missense_variant 1.0
rpoC 764666 p.Gly433Ser missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777875 c.605delG frameshift_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801009 c.201A>G synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101831 c.1212G>A synonymous_variant 1.0
ndh 2102178 c.862_864dupGAC conservative_inframe_insertion 0.77
katG 2156173 c.-62C>A upstream_gene_variant 0.99
PPE35 2170066 p.Ala183Thr missense_variant 0.17
Rv1979c 2223214 c.-50A>C upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726141 c.-52C>A upstream_gene_variant 1.0
Rv2752c 3065517 c.675C>T synonymous_variant 1.0
thyA 3074495 c.-24C>T upstream_gene_variant 1.0
ald 3087717 p.Asn300Asp missense_variant 0.72
fprA 3474299 p.Asp98Gly missense_variant 1.0
Rv3236c 3612219 p.Val300Ile missense_variant 1.0
rpoA 3878635 c.-128C>T upstream_gene_variant 0.5
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4328317 c.-844C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407967 p.Leu79Trp missense_variant 1.0