TB-Profiler result

Run: ERR4813047
Summary

Run ID: ERR4813047

Sample name:

Date: 01-04-2023 12:30:11

Number of reads: 622145

Percentage reads mapped: 99.55

Strain: lineage4.3

Drug-resistance: MDR-TB

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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
lineage4.3 Euro-American (LAM) mainly-LAM 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
rpoB 761101 p.Gln432Pro missense_variant 1.0 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2288764 p.Thr160Pro missense_variant 1.0 pyrazinamide
pncA 2289213 p.Gln10Arg missense_variant 0.11 pyrazinamide
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
rpoB 763087 p.Val1094Asp missense_variant 0.11
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765926 p.Thr853Ala missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416324 p.Asn342Asp missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 0.92
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155757 p.Arg119Ser missense_variant 0.5
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288692 p.Cys184Arg missense_variant 0.2
eis 2714276 c.1057C>A synonymous_variant 0.11
pepQ 2860387 p.Lys11Ile missense_variant 0.14
ribD 2987548 p.Arg237Gln missense_variant 0.11
thyX 3067817 c.129C>T synonymous_variant 0.14
thyA 3073868 p.Thr202Ala missense_variant 1.0
thyA 3074375 p.Gln33Lys missense_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449249 p.Ala249Asp missense_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038384 p.Arg774Gln missense_variant 0.11
embC 4241966 p.Gly702* stop_gained 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247608 c.1095G>A synonymous_variant 0.18
ubiA 4269320 p.Leu172Val missense_variant 1.0
ubiA 4269954 c.-121A>G upstream_gene_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407721 p.Ala161Gly missense_variant 1.0
gid 4408050 p.Asn51Lys missense_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0