TB-Profiler result

Run: SRR23861779
Summary

Run ID: SRR23861779

Sample name:

Date: 12-04-2023 03:51:43

Number of reads: 5744009

Percentage reads mapped: 99.71

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
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 576100 p.Asp251Glu missense_variant 0.24
mshA 576108 p.Ala254Gly missense_variant 0.18
mshA 576113 p.Arg256Gly missense_variant 0.2
mshA 576453 p.Val369Gly missense_variant 0.24
mshA 576456 p.Val370Gly missense_variant 0.22
mshA 576613 c.1266A>C synonymous_variant 0.17
mshA 576626 p.Thr427Pro missense_variant 0.22
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 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2170073 c.540C>G synonymous_variant 0.21
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
fbiD 3339740 p.Ala208Gly missense_variant 0.2
Rv3083 3448322 c.-182G>A upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
rpoA 3878597 c.-90G>C upstream_gene_variant 0.45
rpoA 3878601 c.-94C>G upstream_gene_variant 0.5
rpoA 3878608 c.-101C>G upstream_gene_variant 0.44
rpoA 3878609 c.-102T>G upstream_gene_variant 0.29
rpoA 3878613 c.-106A>C upstream_gene_variant 0.71
rpoA 3878618 c.-111A>C upstream_gene_variant 0.29
rpoA 3878628 c.-121G>T upstream_gene_variant 0.29
rpoA 3878629 c.-122A>T upstream_gene_variant 0.33
rpoA 3878637 c.-130G>C upstream_gene_variant 0.33
rpoA 3878641 c.-134C>G upstream_gene_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245835 p.Leu868Arg missense_variant 0.14
embB 4247007 p.Lys165Thr missense_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0