TB-Profiler result

Run: ERR4818432

Summary

Run ID: ERR4818432

Sample name:

Date: 20-10-2023 08:40:12

Number of reads: 1639843

Percentage reads mapped: 94.87

Strain: lineage4.5

Drug-resistance: HR-TB


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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Rifampicin
Isoniazid R fabG1 c.-15C>T (1.00)
Ethambutol
Pyrazinamide
Streptomycin
Fluoroquinolones
Moxifloxacin
Ofloxacin
Levofloxacin
Ciprofloxacin
Aminoglycosides
Amikacin
Capreomycin
Kanamycin
Cycloserine
Ethionamide R fabG1 c.-15C>T (1.00)
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
lineage4.5 Euro-American H;T RD122 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
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, ethionamide
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 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620029 c.139C>T synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406101 p.Pro414Ser missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.4
rrs 1472123 n.278A>G non_coding_transcript_exon_variant 0.4
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.59
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.93
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.47
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.47
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.47
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.42
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.61
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.35
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.65
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.33
rrs 1472574 n.729T>A non_coding_transcript_exon_variant 0.33
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.63
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.59
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.33
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.65
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.65
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.41
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.75
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.79
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.87
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.75
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.86
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.71
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.64
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.25
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.5
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 0.23
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.25
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.21
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.72
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.8
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168719 p.Thr632Pro missense_variant 1.0
PPE35 2170568 p.Ile15Met missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv3083 3449760 c.1257G>C synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038318 p.Pro796Leu missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0