Run ID: SRR13837427
Sample name:
Date: 2024-10-05T03:36:24.744923
Number of reads: 881566
Percentage reads mapped: 96.01
Median coverage: 30.0
Strain: lineage4.9
Spoligotype:
Drug-resistance: Sensitive
Lineage | Family | RDs | Frequency |
---|---|---|---|
lineage4 | Euro-American | None | 1.0 |
lineage4.9 | Euro-American (H37Rv-like) | None | 1.0 |
Drug | Resistance | Supporting mutations | WHO confidence | Comment |
---|---|---|---|---|
rifampicin | ||||
isoniazid | ||||
ethambutol | ||||
pyrazinamide | ||||
streptomycin | ||||
fluoroquinolones | ||||
moxifloxacin | ||||
ofloxacin | ||||
levofloxacin | ||||
ciprofloxacin | ||||
aminoglycosides | ||||
amikacin | ||||
capreomycin | ||||
kanamycin | ||||
cycloserine | ||||
ethionamide | ||||
clofazimine | ||||
para-aminosalicylic_acid | ||||
delamanid | ||||
bedaquiline | ||||
linezolid |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence | Comment |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence |
---|---|---|---|---|---|---|
dnaA | 1110 | c.1110T>G | synonymous_variant | 0.97 | isoniazid | |
gyrB | 5760 | p.Trp174Leu | missense_variant | 1.0 | levofloxacin | |
moxifloxacin | ||||||
gyrB | 6662 | p.Phe475Val | missense_variant | 1.0 | levofloxacin | |
moxifloxacin | Uncertain significance | |||||
rpoB | 760087 | p.Ser94Phe | missense_variant | 1.0 | rifampicin | |
rpoC | 766854 | p.Leu1162Gln | missense_variant | 1.0 | rifampicin | |
mmpL5 | 778416 | p.Pro22Leu | missense_variant | 1.0 | bedaquiline | |
clofazimine | ||||||
rplC | 801126 | c.318C>T | synonymous_variant | 1.0 | linezolid | |
Rv1129c | 1254196 | c.338delT | frameshift_variant | 1.0 | levofloxacin | Uncertain significance |
moxifloxacin | Uncertain significance | |||||
isoniazid | Uncertain significance | |||||
rifampicin | Uncertain significance | |||||
sigE | 1364560 | p.His50Asn | missense_variant | 1.0 | pyrazinamide | |
rrl | 1475354 | n.1697A>T | non_coding_transcript_exon_variant | 1.0 | capreomycin | |
linezolid | Uncertain significance | |||||
inhA | 1674867 | p.Trp222Cys | missense_variant | 1.0 | isoniazid | |
ethionamide | ||||||
katG | 2154601 | p.Gly504Val | missense_variant | 1.0 | isoniazid | |
Rv1979c | 2222910 | c.255A>G | synonymous_variant | 1.0 | bedaquiline | |
clofazimine | ||||||
pepQ | 2859714 | c.705C>A | synonymous_variant | 1.0 | bedaquiline | |
clofazimine | ||||||
Rv2752c | 3066476 | c.-285C>T | upstream_gene_variant | 1.0 | levofloxacin | |
moxifloxacin | ||||||
isoniazid | ||||||
rifampicin | ||||||
ethambutol | ||||||
ald | 3087172 | p.Glu118Ala | missense_variant | 1.0 | cycloserine | |
ald | 3087905 | c.1086G>A | synonymous_variant | 1.0 | cycloserine | |
Rv3236c | 3613280 | c.-164G>C | upstream_gene_variant | 1.0 | pyrazinamide | |
Rv3236c | 3613355 | c.-239C>G | upstream_gene_variant | 0.96 | pyrazinamide | |
lpqB | 3623494 | p.Ala473Pro | missense_variant | 1.0 | rifampicin | |
bedaquiline | ||||||
lpqB | 3624600 | p.Val104Gly | missense_variant | 1.0 | rifampicin | |
bedaquiline | ||||||
lpqB | 3624838 | p.Pro25Ser | missense_variant | 1.0 | rifampicin | |
bedaquiline | ||||||
alr | 3841499 | c.-79C>T | upstream_gene_variant | 1.0 | cycloserine | |
rpoA | 3878156 | p.Val118Met | missense_variant | 1.0 | rifampicin | |
clpC1 | 4039113 | p.Ala531Asp | missense_variant | 1.0 | pyrazinamide | |
glpK | 4139244 | p.Ala171Gly | missense_variant | 1.0 | levofloxacin | |
moxifloxacin | ||||||
isoniazid | ||||||
streptomycin | ||||||
rifampicin | ||||||
ethambutol | ||||||
embC | 4242095 | p.Ala745Pro | missense_variant | 1.0 | ethambutol | |
embB | 4247621 | c.1108C>T | synonymous_variant | 1.0 | ethambutol | |
ubiA | 4269585 | c.249G>A | synonymous_variant | 1.0 | ethambutol | Not assoc w R - Interim |
ubiA | 4269776 | p.Ala20Pro | missense_variant | 1.0 | ethambutol | |
ethA | 4328211 | c.-739delG | upstream_gene_variant | 1.0 | ethionamide |