TB-Profiler result

Run: SRR5073871
Summary

Run ID: SRR5073871

Sample name:

Date: 21-10-2023 04:42:47

Number of reads: 2595054

Percentage reads mapped: 99.66

Strain: lineage4.8

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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 7321 p.Pro7Leu missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
ccsA 620375 p.Pro162Arg missense_variant 0.99
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_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 2169063 p.Met517Thr missense_variant 0.57
PPE35 2169066 p.Ala516Val missense_variant 0.57
PPE35 2169071 c.1542A>G synonymous_variant 0.5
PPE35 2169122 c.1491C>G synonymous_variant 0.71
PPE35 2169125 p.Val496Ile missense_variant 0.73
PPE35 2169131 c.1482C>T synonymous_variant 0.76
PPE35 2169134 c.1479G>A synonymous_variant 0.76
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726687 c.495C>A synonymous_variant 1.0
embA 4242643 c.-590C>T 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 0.99