TB-Profiler result

Run: ERR11268039
Summary

Run ID: ERR11268039

Sample name:

Date: 07-01-2024 11:05:09

Number of reads: 271881

Percentage reads mapped: 96.6

Strain: La1.6

Drug-resistance: Other

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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 R pncA p.His57Asp (1.00)
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 M.bovis None None 1.0
La1.6 M.bovis None 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
pncA 2289073 p.His57Asp missense_variant 1.0 pyrazinamide
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 5752 c.513G>A synonymous_variant 1.0
gyrA 6406 c.-896C>T upstream_gene_variant 1.0
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrA 7042 c.-260C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8285 c.984C>T synonymous_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9217 p.Asp639Ala missense_variant 0.77
gyrA 9304 p.Gly668Glu missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_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
rrl 1474045 n.388C>T non_coding_transcript_exon_variant 0.8
rrl 1474054 n.397T>C non_coding_transcript_exon_variant 0.8
rrl 1474083 n.426C>T non_coding_transcript_exon_variant 0.58
inhA 1674342 c.141T>C synonymous_variant 0.26
inhA 1674353 p.Thr51Ile missense_variant 0.27
inhA 1674368 p.Ala56Glu missense_variant 0.25
inhA 1674370 p.Lys57Pro missense_variant 0.25
inhA 1674375 c.174C>G synonymous_variant 0.28
inhA 1674399 c.198A>G synonymous_variant 0.27
inhA 1674403 p.Glu68Asn missense_variant 0.29
inhA 1674414 c.213G>C synonymous_variant 0.26
inhA 1674416 p.Ala72Asp missense_variant 0.26
inhA 1674419 p.Ser73Thr missense_variant 0.26
inhA 1674421 c.220T>C synonymous_variant 0.26
inhA 1674428 p.Gly76Asp missense_variant 0.3
inhA 1674435 c.234G>C synonymous_variant 0.3
inhA 1674471 c.270G>T synonymous_variant 0.35
inhA 1674507 c.306G>C synonymous_variant 0.41
inhA 1674534 c.333G>C synonymous_variant 0.44
inhA 1674539 p.Tyr113Phe missense_variant 0.44
inhA 1674542 p.Ala114Glu missense_variant 0.44
inhA 1674546 c.345T>C synonymous_variant 0.47
inhA 1674549 c.348G>C synonymous_variant 0.47
inhA 1674550 p.Ser117Ala missense_variant 0.44
inhA 1674579 c.378G>C synonymous_variant 0.45
inhA 1674585 c.384T>C synonymous_variant 0.45
inhA 1674589 p.Met130Leu missense_variant 0.43
inhA 1674597 c.396G>A synonymous_variant 0.48
inhA 1674600 c.399G>C synonymous_variant 0.48
inhA 1674618 c.417C>T synonymous_variant 0.46
inhA 1674624 c.423A>C synonymous_variant 0.48
inhA 1674627 c.426T>C synonymous_variant 0.45
inhA 1674628 p.Ser143Gly missense_variant 0.45
inhA 1674654 c.453G>C synonymous_variant 0.52
inhA 1674656 p.Ser152Thr missense_variant 0.55
inhA 1674690 c.489C>G synonymous_variant 0.48
inhA 1674693 c.492C>A synonymous_variant 0.46
inhA 1674702 c.501G>A synonymous_variant 0.42
inhA 1674703 c.502T>C synonymous_variant 0.39
inhA 1674714 c.513C>G synonymous_variant 0.41
inhA 1674718 c.517A>C synonymous_variant 0.41
inhA 1674729 c.528G>A synonymous_variant 0.47
inhA 1674745 p.Tyr182Val missense_variant 0.53
inhA 1674750 c.549T>C synonymous_variant 0.5
inhA 1674756 c.555T>G synonymous_variant 0.53
inhA 1674765 c.564C>G synonymous_variant 0.56
inhA 1674774 c.573A>C synonymous_variant 0.53
inhA 1674777 c.576C>G synonymous_variant 0.53
inhA 1674780 c.579T>G synonymous_variant 0.56
inhA 1674801 c.600T>C synonymous_variant 0.47
rpsA 1834859 p.Ala440Thr missense_variant 1.0
ndh 2102121 p.Asp308Asn missense_variant 1.0
ndh 2103173 c.-132delG upstream_gene_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155503 c.609C>T synonymous_variant 1.0
katG 2156025 c.87C>A synonymous_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168011 p.Ser868Arg missense_variant 1.0
PPE35 2168814 c.1798dupA frameshift_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223062 p.Thr35Ala missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746245 p.Ala452Thr missense_variant 1.0
ribD 2987615 c.777A>G stop_lost&splice_region_variant 1.0
ald 3086728 c.-92C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
rpoA 3878630 c.-124delC upstream_gene_variant 1.0
clpC1 4038403 c.2302T>C synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244220 c.988C>T synonymous_variant 1.0
embB 4246864 c.351C>T synonymous_variant 1.0
aftB 4269351 c.-515C>T upstream_gene_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 0.95
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4408265 c.-63T>C upstream_gene_variant 1.0