TB-Profiler result

Run: SRR1162746

Summary

Run ID: SRR1162746

Sample name:

Date: 02-04-2023 23:13:26

Number of reads: 4589057

Percentage reads mapped: 99.37

Strain: lineage4

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
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 0.98 rifampicin
rpoC 765609 p.Asp747Ala missense_variant 0.99 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
embA 4243221 c.-12C>T upstream_gene_variant 1.0 ethambutol
embB 4247431 p.Met306Ile missense_variant 0.99 ethambutol
gid 4407796 p.Ser136* stop_gained 0.99 streptomycin
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 0.99
mshA 575562 p.Met72Thr missense_variant 0.98
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
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154980 c.1132C>T synonymous_variant 1.0
PPE35 2170596 p.Leu6Ser missense_variant 0.98
PPE35 2170811 c.-199C>T upstream_gene_variant 0.98
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv3083 3449145 c.642G>A synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4268076 p.Met254Ala missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0