TB-Profiler result

Run: ERR11081950
Summary

Run ID: ERR11081950

Sample name:

Date: 09-04-2023 17:37:20

Number of reads: 5377208

Percentage reads mapped: 99.61

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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 761139 p.His445Cys missense_variant 1.0 rifampicin
katG 2155960 c.151_152insCAA conservative_inframe_insertion 1.0 isoniazid
pncA 2288956 p.Lys96Glu missense_variant 1.0 pyrazinamide
ahpC 2726141 c.-52C>T upstream_gene_variant 1.0 isoniazid
embB 4247429 p.Met306Leu missense_variant 1.0 ethambutol
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 7879 p.Asn193Ser missense_variant 0.38
rpoB 760278 p.Gly158Ser missense_variant 1.0
rpoC 764098 c.729A>G synonymous_variant 1.0
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 1474001 n.344C>T non_coding_transcript_exon_variant 0.99
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155413 p.Glu233Asp missense_variant 0.26
katG 2155808 p.Phe102Val missense_variant 0.64
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
whiB7 3568623 c.57G>A synonymous_variant 1.0
alr 3840631 p.Pro264Ser missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243226 c.-7G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407758 p.Ser149Arg missense_variant 0.99
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0