TB-Profiler result

Run: ERR5866121
Summary

Run ID: ERR5866121

Sample name:

Date: 02-04-2023 00:31:04

Number of reads: 814319

Percentage reads mapped: 99.23

Strain: lineage4.3.3

Drug-resistance: MDR-TB

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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
rpoB 761100 p.Gln432Lys missense_variant 1.0 rifampicin
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 6433 c.-869C>T upstream_gene_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 761064 p.Ala420Ser missense_variant 0.12
rpoB 762201 p.Lys799Gln missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765724 c.2355C>A synonymous_variant 0.25
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
rrl 1475657 n.2000A>T non_coding_transcript_exon_variant 0.14
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156196 c.-85C>T upstream_gene_variant 1.0
PPE35 2169029 c.1584T>C synonymous_variant 0.13
PPE35 2170048 p.Leu189Val missense_variant 0.38
PPE35 2170053 p.Thr187Ser missense_variant 0.38
PPE35 2170342 c.250_270delGAGCAGGCGGCCACCCAGGCC conservative_inframe_deletion 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518335 p.Arg74Gln missense_variant 0.12
kasA 2518919 p.Gly269Ser missense_variant 1.0
kasA 2519068 c.954C>T synonymous_variant 0.11
eis 2714598 c.735C>A synonymous_variant 0.11
eis 2715057 c.276C>T synonymous_variant 0.13
eis 2715060 p.His91Met missense_variant 0.13
eis 2715065 p.Thr90Ala missense_variant 0.13
folC 2746340 p.Ala420Val missense_variant 1.0
Rv2752c 3066060 p.Asp44Glu missense_variant 0.1
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087218 p.Met133Ile missense_variant 0.13
Rv3083 3449177 p.Lys225Arg missense_variant 0.25
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3840364 p.Gly353Arg missense_variant 0.13
alr 3840368 c.1053C>A synonymous_variant 0.12
rpoA 3877849 p.Gly220Asp missense_variant 0.1
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038968 c.1737G>A synonymous_variant 1.0
clpC1 4040241 p.Thr155Phe missense_variant 0.18
clpC1 4040249 p.Glu152Gly missense_variant 0.18
embC 4240675 c.813C>T synonymous_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243184 c.-49G>A upstream_gene_variant 0.14
embA 4243824 p.Thr198Ala missense_variant 0.11
embA 4244969 c.1737G>T synonymous_variant 0.12
embB 4246496 c.-18A>G upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407808 p.Asp132Gly missense_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0