TB-Profiler result

Run: SRR6824436
Summary

Run ID: SRR6824436

Sample name:

Date: 20-10-2023 19:36:57

Number of reads: 1402576

Percentage reads mapped: 98.97

Strain: lineage4.5;lineage2.2.1.1

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
lineage2 East-Asian Beijing RD105 0.13
lineage4 Euro-American LAM;T;S;X;H None 0.88
lineage4.5 Euro-American H;T RD122 0.85
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.09
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.12
lineage2.2.1.1 East-Asian (Beijing) Beijing-RD150 RD105;RD207;RD181;RD150 0.06
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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7892 c.591G>A synonymous_variant 0.67
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620029 c.139C>T synonymous_variant 0.83
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406101 p.Pro414Ser missense_variant 0.85
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.18
PPE35 2167926 p.Leu896Ser missense_variant 0.18
PPE35 2170568 p.Ile15Met missense_variant 0.86
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518871 p.His253Tyr missense_variant 0.16
eis 2714846 p.Val163Ile missense_variant 0.23
eis 2715076 p.Ala86Val missense_variant 0.76
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038318 p.Pro796Leu missense_variant 0.82
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338594 c.-73T>G upstream_gene_variant 0.93
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.19