TB-Profiler result

Run: SRR6045465

Summary

Run ID: SRR6045465

Sample name:

Date: 20-10-2023 18:10:40

Number of reads: 1257900

Percentage reads mapped: 96.7

Strain: lineage4.4

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
lineage4.4 Euro-American S;T 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
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 9304 p.Gly668Asp missense_variant 1.0
rpoC 762914 c.-456C>T upstream_gene_variant 1.0
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
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.44
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.44
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.53
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.53
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.62
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.62
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.55
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.46
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.73
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.73
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.73
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.73
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167851 p.Asn921Ser missense_variant 1.0
PPE35 2169265 p.Ser450Arg missense_variant 1.0
PPE35 2169757 p.Asn286Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ribD 2987278 p.Ala147Val missense_variant 1.0
Rv2752c 3065715 c.477T>C synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4268928 c.-92C>T upstream_gene_variant 1.0
aftB 4269375 c.-539G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407716 p.Lys163Glu missense_variant 1.0