TB-Profiler result

Run: SRR23082913

Summary

Run ID: SRR23082913

Sample name:

Date: 04-04-2023 04:21:43

Number of reads: 6010247

Percentage reads mapped: 99.97

Strain: lineage4.9

Drug-resistance: Other


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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
lineage4.9 Euro-American (H37Rv-like) T1 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
rplC 801268 p.Cys154Arg missense_variant 1.0 linezolid
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
mshA 576489 p.Val381Gly missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
pepQ 2860144 p.Val92Gly missense_variant 0.16
whiB7 3568428 c.252A>C synonymous_variant 0.14
rpoA 3878613 c.-106A>C upstream_gene_variant 0.19
rpoA 3878653 c.-146A>C upstream_gene_variant 0.15
panD 4043882 p.Pro134Ala missense_variant 1.0
embB 4248309 p.Phe599Cys missense_variant 0.15
panD 4043882 c.-897_399del start_lost&conservative_inframe_deletion 1.0