TB-Profiler result

Run: SRR6650371
Summary

Run ID: SRR6650371

Sample name:

Date: 15-08-2023 08:26:37

Number of reads: 3694356

Percentage reads mapped: 99.56

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 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
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576618 p.His424Pro missense_variant 0.22
mshA 576723 p.Val459Gly missense_variant 0.23
ccsA 620748 c.858T>G synonymous_variant 0.31
rpoB 759615 c.-192A>C upstream_gene_variant 0.22
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpR5 779363 p.Leu125Arg missense_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303016 p.Val29Gly missense_variant 0.43
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472528 n.683T>G non_coding_transcript_exon_variant 0.25
rrl 1473953 n.296T>G non_coding_transcript_exon_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167855 p.Phe920Val missense_variant 0.24
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169317 c.1296C>T synonymous_variant 0.17
PPE35 2169320 p.Leu431Phe missense_variant 0.25
PPE35 2169862 p.Asn251His missense_variant 0.22
PPE35 2169866 c.747G>C synonymous_variant 0.21
PPE35 2170048 p.Leu189Val missense_variant 0.14
PPE35 2170053 p.Thr187Ser missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.34
ahpC 2726341 p.Val50Gly missense_variant 0.22
ahpC 2726350 p.Trp53Leu missense_variant 0.14
Rv2752c 3064562 p.Thr544Pro missense_variant 0.24
Rv2752c 3064745 p.Thr483Pro missense_variant 0.34
thyX 3067995 c.-50A>C upstream_gene_variant 0.28
thyX 3068024 c.-79A>C upstream_gene_variant 0.21
thyX 3068031 c.-86A>C upstream_gene_variant 0.23
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473820 c.-187C>A upstream_gene_variant 0.97
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475280 p.Val425Gly missense_variant 0.24
fbiB 3642751 p.Asp406Ala missense_variant 0.23
fbiB 3642757 p.Val408Ala missense_variant 0.25
fbiB 3642772 p.Asp413Ala missense_variant 0.22
ddn 3986994 p.Thr51Pro missense_variant 0.21
ddn 3986997 p.Thr52Pro missense_variant 0.21
clpC1 4038250 p.Thr819Pro missense_variant 0.22
clpC1 4040242 p.Thr155Pro missense_variant 0.24
embC 4239834 c.-29G>C upstream_gene_variant 0.21
embC 4239838 c.-25T>C upstream_gene_variant 0.24
embC 4239973 c.111T>G synonymous_variant 0.23
embC 4240009 c.147G>A synonymous_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.34
embB 4249305 p.Asn931Thr missense_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0