TB-Profiler result

Run: ERR4813007
Summary

Run ID: ERR4813007

Sample name:

Date: 01-04-2023 12:28:28

Number of reads: 889387

Percentage reads mapped: 99.69

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
lineage4.3.3 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 761155 p.Ser450Leu missense_variant 1.0 rifampicin
rpsL 781822 p.Lys88Thr missense_variant 1.0 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2289097 p.Asp49Asn missense_variant 1.0 pyrazinamide
embB 4247431 p.Met306Ile missense_variant 1.0 ethambutol
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 7682 p.Met127Ile missense_variant 0.13
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576123 p.Leu259Arg missense_variant 0.2
rpoB 761720 c.1914C>T synonymous_variant 0.2
rpoB 761880 p.Ala692Thr missense_variant 1.0
rpoB 762859 p.Thr1018Lys missense_variant 0.11
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765804 p.Thr812Ile missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775641 p.Pro947Leu missense_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918540 p.Pro201Thr missense_variant 0.29
katG 2154459 c.1653C>T synonymous_variant 1.0
katG 2155631 p.Trp161Arg missense_variant 0.1
PPE35 2170272 p.Arg114His missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
folC 2746462 c.1137C>A synonymous_variant 0.25
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087840 p.Lys341Glu missense_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4241758 c.1896G>T synonymous_variant 0.15
aftB 4268003 p.Leu278Phe missense_variant 0.2
ubiA 4269602 p.Val78Phe missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407720 c.483C>G synonymous_variant 1.0
gid 4408003 p.Asp67Gly missense_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0