TB-Profiler result

Run: ERR2707158

Summary

Run ID: ERR2707158

Sample name:

Date: 19-10-2023 11:59:28

Number of reads: 3862014

Percentage reads mapped: 99.59

Strain: La1.5

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
La1.5 M.bovis None None 0.34
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
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrB 6950 p.Leu571Ile missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 0.99
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7901 c.600G>T synonymous_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 760755 p.His317Tyr missense_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
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833474 c.-68C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155503 c.609C>T synonymous_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168482 p.Val711Ile missense_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 0.99
Rv1979c 2223137 p.Ala10Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
Rv2752c 3065508 c.683delG frameshift_variant 1.0
ald 3086728 c.-92C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087084 c.266delA frameshift_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242848 p.Pro996Thr missense_variant 1.0
embA 4244220 c.988C>T synonymous_variant 1.0
embA 4244717 p.Trp495Cys missense_variant 1.0
embB 4246864 c.351C>T synonymous_variant 0.99
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4247695 c.1182G>A synonymous_variant 1.0
embB 4248343 c.1830G>A synonymous_variant 1.0
aftB 4267322 c.1515C>T synonymous_variant 0.99
aftB 4269351 c.-515C>T upstream_gene_variant 0.98
ubiA 4269387 p.Glu149Asp missense_variant 0.99
aftB 4269606 c.-770T>C upstream_gene_variant 0.98
ethA 4327532 c.-59G>A upstream_gene_variant 1.0
whiB6 4338559 c.-38G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338719 c.-198T>C upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
eis 2712623 c.762_*1500del frameshift_variant&stop_lost&splice_region_variant 1.0