TB-Profiler result

Run: ERR2679284
Summary

Run ID: ERR2679284

Sample name:

Date: 31-03-2023 23:01:10

Number of reads: 571511

Percentage reads mapped: 99.52

Strain: lineage4.1.3

Drug-resistance: MDR-TB

Download CSV Download TXT Download PDF Download JSON
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
lineage4.1 Euro-American T;X;H None 0.99
lineage4.1.3 Euro-American T;X;H None 0.99
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 761110 p.Asp435Val missense_variant 1.0 rifampicin
fabG1 1673432 c.-8T>A upstream_gene_variant 1.0 isoniazid
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
embB 4247429 p.Met306Val missense_variant 1.0 ethambutol
gid 4407967 p.Leu79Ser missense_variant 1.0 streptomycin
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 9304 p.Gly668Asp missense_variant 1.0
gyrA 9557 c.2256G>C synonymous_variant 0.94
mshA 575926 c.579A>G synonymous_variant 0.12
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781421 c.-139C>A upstream_gene_variant 1.0
fbiC 1304610 c.1680C>T synonymous_variant 1.0
Rv1258c 1407069 c.271delC frameshift_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474954 n.1297A>G non_coding_transcript_exon_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519055 c.942delG frameshift_variant 0.12
thyX 3067240 p.Ala236Thr missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878627 c.-120T>G upstream_gene_variant 0.67
panD 4043882 p.Pro134Ser missense_variant 1.0
embC 4240570 c.708C>T synonymous_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242714 p.Asp951Val missense_variant 0.12
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244184 p.Ser318Arg missense_variant 0.12
embA 4244520 c.1292delC frameshift_variant 0.12
embA 4244609 c.1377G>T synonymous_variant 0.12
aftB 4267945 p.Tyr298Asn missense_variant 0.11
ethA 4327067 p.Leu136Arg missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0