TB-Profiler result

Run: SRR23938660
Summary

Run ID: SRR23938660

Sample name:

Date: 13-04-2023 23:05:12

Number of reads: 5489328

Percentage reads mapped: 99.7

Strain: lineage4.8

Drug-resistance: Sensitive

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Rifampicin
Isoniazid
Ethambutol
Pyrazinamide
Streptomycin
Fluoroquinolones
Moxifloxacin
Ofloxacin
Levofloxacin
Ciprofloxacin
Aminoglycosides
Amikacin
Capreomycin
Kanamycin
Cycloserine
Ethionamide
Clofazimine
Para-aminosalicylic_acid
Delamanid
Bedaquiline
Linezolid
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
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 6084 p.Gly282Asp missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 575378 p.Gly11Arg missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.16
mshA 576456 p.Val370Gly missense_variant 0.19
mshA 576613 c.1266A>C synonymous_variant 0.18
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 0.99
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.99
fabG1 1673553 p.Asp38Glu missense_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.41
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.16
fbiD 3339734 p.Ala206Gly missense_variant 0.82
fbiD 3339746 p.Ala210Gly missense_variant 0.35
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
whiB7 3568425 c.255T>G synonymous_variant 0.29
rpoA 3878597 c.-90G>C upstream_gene_variant 0.19
rpoA 3878641 c.-134C>G upstream_gene_variant 0.43
embC 4240409 p.Pro183Ala missense_variant 0.26
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245825 p.Asp865Asn missense_variant 1.0
ethA 4327890 c.-417G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0