Run ID: ERR2516472
Sample name:
Date: 19-10-2023 23:44:29
Number of reads: 4184180
Percentage reads mapped: 98.42
Strain: lineage4
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | R | rpoB p.Asp435Tyr (1.00) |
Isoniazid | R | katG p.Ser315Thr (1.00) |
Ethambutol | R | embB p.Gly406Ser (0.99) |
Pyrazinamide | R | pncA c.380_388delAGGTCGATG (1.00) |
Streptomycin | ||
Fluoroquinolones | ||
Moxifloxacin | ||
Ofloxacin | ||
Levofloxacin | ||
Ciprofloxacin | ||
Aminoglycosides | ||
Amikacin | ||
Capreomycin | ||
Kanamycin | ||
Cycloserine | ||
Ethionamide | R | ethA c.719_723dupGGAAG (1.00) |
Clofazimine | R | mmpR5 c.198dupG (1.00) |
Para-aminosalicylic_acid | ||
Delamanid | ||
Bedaquiline | R | mmpR5 c.198dupG (1.00) |
Linezolid |
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761109 | p.Asp435Tyr | missense_variant | 1.0 | rifampicin |
mmpR5 | 779181 | c.198dupG | frameshift_variant | 1.0 | clofazimine, bedaquiline |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288853 | c.380_388delAGGTCGATG | disruptive_inframe_deletion | 1.0 | pyrazinamide |
embB | 4247729 | p.Gly406Ser | missense_variant | 0.99 | ethambutol |
ethA | 4326750 | c.719_723dupGGAAG | frameshift_variant | 1.0 | ethionamide |
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 |
mshA | 575837 | c.490C>T | synonymous_variant | 1.0 |
rpoB | 761889 | p.Val695Leu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777875 | c.605delG | frameshift_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 801009 | c.201A>G | synonymous_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.19 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2101831 | c.1212G>A | synonymous_variant | 0.99 |
katG | 2156173 | c.-62C>A | upstream_gene_variant | 1.0 |
Rv1979c | 2223214 | c.-50A>C | upstream_gene_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ahpC | 2726141 | c.-52C>A | upstream_gene_variant | 1.0 |
Rv2752c | 3065517 | c.675C>T | synonymous_variant | 1.0 |
thyA | 3074495 | c.-24C>T | upstream_gene_variant | 1.0 |
fprA | 3474299 | p.Asp98Gly | missense_variant | 1.0 |
Rv3236c | 3612219 | p.Val300Ile | missense_variant | 1.0 |
rpoA | 3878635 | c.-128C>T | upstream_gene_variant | 0.15 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
ubiA | 4269124 | p.Ala237Val | missense_variant | 1.0 |
ethA | 4328317 | c.-844C>T | upstream_gene_variant | 0.99 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407967 | p.Leu79Trp | missense_variant | 1.0 |