TB-Profiler result

Run: ERR4423642

Summary

Run ID: ERR4423642

Sample name:

Date: 01-04-2023 05:56:18

Number of reads: 691890

Percentage reads mapped: 99.38

Strain: lineage4.6.4

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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.4 Euro-American T;LAM 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 761140 p.His445Leu missense_variant 1.0 rifampicin
ahpC 2726119 c.-74G>A upstream_gene_variant 0.67 isoniazid
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 7024 c.1787delA frameshift_variant 0.25
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9121 p.Arg607His missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 761392 c.1588delG frameshift_variant 0.18
rpoB 761744 p.Glu646Asp missense_variant 0.14
rpoC 767233 p.Tyr1288* stop_gained 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776078 c.2403C>T synonymous_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303542 c.612C>G synonymous_variant 0.18
Rv1258c 1406516 c.825G>T synonymous_variant 0.14
embR 1417506 c.-159T>C upstream_gene_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834850 c.1311dupC frameshift_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154761 c.1336_1350delAGCCACGACCTCGTC conservative_inframe_deletion 1.0
katG 2155065 c.1047C>A synonymous_variant 1.0
Rv1979c 2222842 c.322dupG frameshift_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289274 c.-33G>A upstream_gene_variant 1.0
eis 2714393 p.Val314Leu missense_variant 1.0
eis 2715126 p.Leu69Phe missense_variant 0.14
ahpC 2726100 c.-93G>T upstream_gene_variant 0.18
ahpC 2726253 p.Gly21Cys missense_variant 0.2
ald 3087271 p.Arg151Leu missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474861 p.Glu285Asp missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245352 p.Lys707Thr missense_variant 1.0
embB 4249795 c.3282C>T synonymous_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0