TB-Profiler result

Run: ERR11043389
Summary

Run ID: ERR11043389

Sample name:

Date: 31-03-2023 11:33:28

Number of reads: 3253552

Percentage reads mapped: 99.72

Strain: lineage4.7

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
lineage4.7 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
rpoB 761140 p.His445Arg missense_variant 1.0 rifampicin
inhA 1674262 p.Ile21Val missense_variant 1.0 isoniazid
katG 2156110 p.Val1Ala missense_variant 1.0 isoniazid
pncA 2289175 c.66dupC frameshift_variant 1.0 pyrazinamide, pyrazinamide
ahpC 2726141 c.-52C>T upstream_gene_variant 1.0 isoniazid
embB 4247729 p.Gly406Cys missense_variant 1.0 ethambutol
ethA 4327132 c.341delA frameshift_variant 1.0 ethionamide, ethionamide
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 7270 c.-32C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
rpoB 761265 p.Asn487His missense_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 1474294 n.637C>G non_coding_transcript_exon_variant 1.0
rpsA 1834202 p.Asn221Asp missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102444 c.596_598dupGCG conservative_inframe_insertion 1.0
PPE35 2170675 c.-63G>C upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746280 p.Ile440Ser missense_variant 1.0
thyA 3073873 p.Ile200Ser missense_variant 1.0
thyA 3074356 p.Ser39Gln missense_variant 1.0
whiB7 3568428 c.252A>C synonymous_variant 0.26
whiB7 3568431 c.249C>G synonymous_variant 0.19
rpoA 3877860 c.648C>A synonymous_variant 1.0
rpoA 3878641 c.-134C>G upstream_gene_variant 0.21
clpC1 4040235 p.Gly157Ala missense_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249732 c.3219C>G synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0