TB-Profiler result

Run: ERR552254
Summary

Run ID: ERR552254

Sample name:

Date: 18-08-2022 09:21:31

Number of reads: 579839

Percentage reads mapped: 99.7

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans 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
rpoB 761277 p.Ile491Phe missense_variant 1.0 rifampicin
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2289091 p.His51Asp 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
gyrB 7116 p.Met626Thr missense_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9138 p.Gln613Glu missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 759940 p.Pro45Leu missense_variant 0.27
rpoB 759960 p.Thr52Pro missense_variant 0.2
rpoB 761131 p.Gly442Val missense_variant 0.15
rpoC 765600 p.Glu744Gly missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800924 c.118_120dupCGC conservative_inframe_insertion 0.12
fbiC 1302940 p.Pro4Thr missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673512 c.78delG frameshift_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
kasA 2518496 c.382C>T synonymous_variant 1.0
thyX 3067276 p.Pro224Thr missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiB 3641106 c.-429C>T upstream_gene_variant 0.12
fbiB 3641247 c.-288A>G upstream_gene_variant 0.15
ddn 3986903 p.Trp20Cys missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244773 p.Ser514Leu missense_variant 0.12
ubiA 4269022 p.Ala271Val missense_variant 0.1