TB-Profiler result

Run: ERR11081121
Summary

Run ID: ERR11081121

Sample name:

Date: 08-04-2023 07:28:50

Number of reads: 5297537

Percentage reads mapped: 99.72

Strain: lineage4.7

Drug-resistance: Pre-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
lineage4.7 Euro-American (mainly T) T1;T5 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 761095 p.Leu430Arg missense_variant 1.0 rifampicin
rpoB 761139 p.His445Tyr missense_variant 1.0 rifampicin
tlyA 1918521 c.588_592dupGGTGG frameshift_variant 1.0 capreomycin
pncA 2288746 c.495_496insAA frameshift_variant 1.0 pyrazinamide
ahpC 2726141 c.-52C>T upstream_gene_variant 1.0 isoniazid
embB 4248003 p.Gln497Arg missense_variant 1.0 ethambutol
ethA 4326592 c.878_881dupTGTG frameshift_variant 1.0 ethionamide, ethionamide
katG 2135936 c.-7947_*17952del transcript_ablation 1.0 isoniazid
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 9381 p.Gly694Ser missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775715 c.2766G>A synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834034 p.Ile165Pro missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168439 p.Ser725Phe missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ribD 2986827 c.-12G>A upstream_gene_variant 1.0
Rv2752c 3065059 p.Ala378Val missense_variant 0.99
thyX 3067665 p.Ile94Thr missense_variant 1.0
Rv3083 3449003 c.503_508dupACTGGC disruptive_inframe_insertion 0.96
alr 3841362 p.Thr20Met missense_variant 1.0
rpoA 3877836 c.672A>G synonymous_variant 1.0
clpC1 4040705 c.-1G>A upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249732 c.3219C>G synonymous_variant 1.0
ubiA 4269124 p.Ala237Val missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407590 p.Ala205Thr missense_variant 1.0
gid 4408057 p.Leu49Arg missense_variant 1.0