TB-Profiler result

Run: ERR4827521
Summary

Run ID: ERR4827521

Sample name:

Date: 01-04-2023 18:07:19

Number of reads: 3028754

Percentage reads mapped: 99.8

Strain: lineage4.8

Drug-resistance: HR-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
inhA 1674048 c.-154G>A upstream_gene_variant 1.0 isoniazid, ethionamide
inhA 1674481 p.Ser94Ala missense_variant 1.0 isoniazid, ethionamide
pncA 2288941 c.300dupC frameshift_variant 1.0 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
gyrB 6432 p.Ala398Val missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.26
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 1.0
rrl 1475692 n.2035G>C non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726067 c.-126_-125insT upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.29
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
rpoA 3878613 c.-106A>C upstream_gene_variant 0.35
rpoA 3878637 c.-130G>C upstream_gene_variant 0.23
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246582 c.69T>C synonymous_variant 0.17
embB 4246584 p.Arg24Pro missense_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407847 p.Ala119Asp missense_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0