TB-Profiler result

Run: SRR21659030
Summary

Run ID: SRR21659030

Sample name:

Date: 04-04-2023 02:26:36

Number of reads: 766459

Percentage reads mapped: 99.65

Strain: lineage4.6

Drug-resistance: Other

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
lineage4.6 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
gyrA 7570 p.Ala90Val missense_variant 1.0 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
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 8008 p.Gly236Glu missense_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 763644 p.Met92Thr missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 779498 c.-593G>A upstream_gene_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154830 p.Gly428Trp missense_variant 0.11
PPE35 2168080 p.Thr845Ala missense_variant 1.0
PPE35 2169221 c.1392T>C synonymous_variant 0.12
PPE35 2170071 p.Gly181Glu missense_variant 0.12
PPE35 2170198 p.Ala139Thr missense_variant 1.0
PPE35 2170792 c.-180T>C upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3074648 c.-177T>G upstream_gene_variant 0.25
Rv3083 3448473 c.-31C>G upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0