TB-Profiler result

Run: ERR2653091
Summary

Run ID: ERR2653091

Sample name:

Date: 31-03-2023 22:30:45

Number of reads: 793867

Percentage reads mapped: 99.38

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 761155 p.Ser450Leu missense_variant 1.0 rifampicin
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2288767 p.Leu159Val missense_variant 1.0 pyrazinamide
embB 4247429 p.Met306Val missense_variant 0.96 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
mshA 575416 c.69_70insA frameshift_variant 1.0
mshA 575437 c.91delT frameshift_variant 1.0
rpoC 764944 p.His525Gln 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
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290033 c.-792C>G upstream_gene_variant 1.0
folC 2747490 p.Arg37Gly missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249323 p.Ala937Glu missense_variant 0.15
embB 4249732 c.3219C>G synonymous_variant 1.0
aftB 4268645 c.192G>C synonymous_variant 1.0
whiB6 4338593 c.-73delT upstream_gene_variant 1.0
whiB6 4338596 c.-75G>C upstream_gene_variant 1.0