TB-Profiler result

Run: SRR6045616

Summary

Run ID: SRR6045616

Sample name:

Date: 20-10-2023 18:12:12

Number of reads: 2895779

Percentage reads mapped: 90.67

Strain: lineage4.4.1.2

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
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.2 Euro-American T1 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
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 1472598 n.753A>C non_coding_transcript_exon_variant 0.62
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.69
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.46
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.69
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.69
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.67
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.67
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.68
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.68
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.44
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.45
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.4
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.29
rrl 1476691 n.3034T>C non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2167770 p.Ser948Ile missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860213 p.Pro69Leu missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embC 4241078 p.Ile406Val missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247008 c.495G>A synonymous_variant 1.0
embB 4249012 c.2499G>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0