TB-Profiler result

Run: ERR2041711

Summary

Run ID: ERR2041711

Sample name:

Date: 18-08-2022 09:23:35

Number of reads: 697388

Percentage reads mapped: 98.6

Strain: lineage4.8

Drug-resistance: RR-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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
rrs 1473246 n.1401A>G non_coding_transcript_exon_variant 1.0 kanamycin, capreomycin, aminoglycosides, amikacin
pncA 2288874 p.Arg123Pro missense_variant 1.0 pyrazinamide
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 6241 c.1002C>T synonymous_variant 1.0
gyrA 6754 c.-548C>T upstream_gene_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
fgd1 491777 p.Leu332Ser missense_variant 0.15
rpoC 765822 p.Ala818Val missense_variant 1.0
rpoC 766327 c.2958C>G synonymous_variant 0.13
rpoC 766654 c.3285C>A synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304532 c.1602G>C synonymous_variant 0.12
embR 1416232 c.1116T>C synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1476715 n.3058A>G non_coding_transcript_exon_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154016 p.Gly699Glu missense_variant 1.0
katG 2154962 p.Leu384Met missense_variant 0.12
fbiB 3642630 p.Thr366Ser missense_variant 0.17
fbiB 3642637 p.Ala368Gly missense_variant 0.12
fbiB 3642639 c.1107_1111delGCACA frameshift_variant 0.12
fbiB 3642648 p.Met372Val missense_variant 0.12
fbiB 3642651 p.Phe373Ile missense_variant 0.11
fbiB 3642655 p.Thr374Met missense_variant 0.11
fbiB 3642661 p.Ala376Gly missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0