Run ID: SRR13837734
Sample name:
Date: 2025-03-08T11:04:27.486862
Number of reads: 2936538
Percentage reads mapped: 100.0
Median coverage: 98.0
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 |
---|---|---|---|---|---|---|
gyrB | 5922 | p.Glu228Gly | missense_variant | 1.0 | levofloxacin | Uncertain significance |
moxifloxacin | Uncertain significance | |||||
gyrB | 7242 | p.Lys668Thr | missense_variant | 1.0 | levofloxacin | Uncertain significance |
moxifloxacin | Uncertain significance | |||||
ccsA | 620360 | p.Tyr157Ser | missense_variant | 0.99 | amikacin | Uncertain significance |
capreomycin | Uncertain significance | |||||
kanamycin | Uncertain significance | |||||
hadA | 732060 | p.Gly44Val | missense_variant | 1.0 | isoniazid | Uncertain significance |
hadA | 732292 | c.363C>T | synonymous_variant | 1.0 | isoniazid | Uncertain significance |
nusG | 734239 | c.-14delG | upstream_gene_variant | 1.0 | rifampicin | Uncertain significance |
mmaA3 | 738003 | p.Met49Ile | missense_variant | 1.0 | isoniazid | Uncertain significance |
rpoB | 761356 | c.1550_1551insA | frameshift_variant | 1.0 | rifampicin | Uncertain significance |
rpoC | 763347 | c.-23C>G | upstream_gene_variant | 1.0 | rifampicin | Uncertain significance |
rpoC | 766025 | p.Val886Met | missense_variant | 1.0 | rifampicin | Uncertain significance |
mmpL5 | 776145 | p.Ala779Gly | missense_variant | 1.0 | bedaquiline | Uncertain significance |
clofazimine | Uncertain significance | |||||
mmpL5 | 776954 | p.Lys509Asn | missense_variant | 1.0 | bedaquiline | Uncertain significance |
clofazimine | Uncertain significance | |||||
rplC | 801231 | c.423C>A | synonymous_variant | 1.0 | linezolid | Uncertain significance |
sigE | 1364454 | c.42G>A | synonymous_variant | 1.0 | pyrazinamide | Uncertain significance |
atpE | 1460916 | c.-129G>A | upstream_gene_variant | 1.0 | bedaquiline | Uncertain significance |
rrl | 1476201 | n.2544C>G | non_coding_transcript_exon_variant | 0.99 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
katG | 2155137 | c.975G>C | synonymous_variant | 1.0 | isoniazid | Uncertain significance |
PPE35 | 2168892 | p.Thr574Lys | missense_variant | 1.0 | pyrazinamide | Uncertain significance |
Rv1979c | 2222852 | p.Ala105Thr | missense_variant | 1.0 | bedaquiline | Uncertain significance |
clofazimine | Uncertain significance | |||||
ribD | 2987259 | p.Leu141Val | missense_variant | 1.0 | para-aminosalicylic_acid | Uncertain significance |
Rv2752c | 3065161 | p.Asn344Thr | missense_variant | 1.0 | ethambutol | Uncertain significance |
isoniazid | Uncertain significance | |||||
levofloxacin | Uncertain significance | |||||
moxifloxacin | Uncertain significance | |||||
rifampicin | Uncertain significance | |||||
Rv2752c | 3065830 | p.Ile121Thr | missense_variant | 1.0 | ethambutol | Uncertain significance |
isoniazid | Uncertain significance | |||||
levofloxacin | Uncertain significance | |||||
moxifloxacin | Uncertain significance | |||||
rifampicin | Uncertain significance | |||||
Rv2752c | 3067100 | c.-909G>A | upstream_gene_variant | 1.0 | ethambutol | Uncertain significance |
isoniazid | Uncertain significance | |||||
levofloxacin | Uncertain significance | |||||
moxifloxacin | Uncertain significance | |||||
rifampicin | Uncertain significance | |||||
fbiD | 3339117 | c.-1C>T | upstream_gene_variant | 1.0 | clofazimine | Uncertain significance |
delamanid | Uncertain significance | |||||
pretomanid | Uncertain significance | |||||
Rv3083 | 3448661 | p.Val53Ala | missense_variant | 0.99 | ethionamide | Uncertain significance |
Rv3236c | 3612041 | p.Val359Glu | missense_variant | 1.0 | pyrazinamide | Uncertain significance |
lpqB | 3623964 | p.Gly316Val | missense_variant | 1.0 | bedaquiline | Uncertain significance |
rifampicin | Uncertain significance | |||||
lpqB | 3624582 | p.Ala110Gly | missense_variant | 1.0 | bedaquiline | Uncertain significance |
rifampicin | Uncertain significance | |||||
fbiA | 3640418 | c.-125C>A | upstream_gene_variant | 1.0 | clofazimine | Uncertain significance |
delamanid | Uncertain significance | |||||
pretomanid | Uncertain significance | |||||
rpoA | 3877877 | p.Ala211Ser | missense_variant | 1.0 | rifampicin | Uncertain significance |
clpC1 | 4039250 | c.1455C>G | synonymous_variant | 1.0 | pyrazinamide | Uncertain significance |
embC | 4242113 | c.2251C>T | synonymous_variant | 1.0 | ethambutol | Uncertain significance |
embB | 4246367 | c.-147C>T | upstream_gene_variant | 0.99 | ethambutol | Uncertain significance |
whiB6 | 4338567 | c.-46C>T | upstream_gene_variant | 1.0 | amikacin | Uncertain significance |
capreomycin | Uncertain significance | |||||
kanamycin | Uncertain significance | |||||
gid | 4408302 | c.-101delC | upstream_gene_variant | 1.0 | streptomycin | Uncertain significance |