TB-Profiler result

Run: ERR2041802

Summary

Run ID: ERR2041802

Sample name:

Date: 18-08-2022 09:23:59

Number of reads: 630649

Percentage reads mapped: 99.83

Strain: lineage4.8

Drug-resistance: MDR-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
lineage4.8 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 761155 p.Ser450Leu missense_variant 1.0 rifampicin
rpsL 781822 p.Lys88Arg missense_variant 1.0 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2288727 p.Leu172Pro missense_variant 1.0 pyrazinamide
embB 4248003 p.Gln497Arg 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
fgd1 491357 p.Phe192Ser missense_variant 0.18
mshA 575221 c.-127C>A upstream_gene_variant 0.11
mshA 575592 p.Arg82Gln missense_variant 0.11
mshA 576013 c.667delC frameshift_variant 0.12
rpoC 765678 p.Arg770His missense_variant 1.0
rpoC 766914 p.Asp1182Gly missense_variant 0.13
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 1.0
rrl 1474491 n.834A>T non_coding_transcript_exon_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
kasA 2519001 p.Glu296Gly missense_variant 0.11
alr 3841612 c.-193_-192insC upstream_gene_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244693 c.1463delA frameshift_variant 0.17
embA 4245236 p.Met668Ile missense_variant 0.13
embB 4246544 p.Thr11Pro missense_variant 0.14
ubiA 4269933 c.-100C>T upstream_gene_variant 0.14
ethR 4327555 p.Thr3Ala missense_variant 0.12