Run ID: SRR23861854
Sample name:
Date: 12-04-2023 07:12:33
Number of reads: 4724914
Percentage reads mapped: 99.66
Strain: lineage4.8
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | R | rpsL p.Lys43Arg (1.00) |
Fluoroquinolones | ||
Moxifloxacin | ||
Ofloxacin | ||
Levofloxacin | ||
Ciprofloxacin | ||
Aminoglycosides | ||
Amikacin | ||
Capreomycin | ||
Kanamycin | ||
Cycloserine | ||
Ethionamide | ||
Clofazimine | ||
Para-aminosalicylic_acid | ||
Delamanid | ||
Bedaquiline | ||
Linezolid |
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 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 778107 | p.Ser125Cys | missense_variant | 0.99 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1475778 | n.2121G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476068 | n.2411C>A | non_coding_transcript_exon_variant | 0.15 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168149 | p.Pro822Ser | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
Rv3083 | 3448497 | c.-7T>A | upstream_gene_variant | 1.0 |
whiB7 | 3568418 | p.Lys88Gln | missense_variant | 0.19 |
whiB7 | 3568428 | c.252A>C | synonymous_variant | 0.21 |
whiB7 | 3568431 | c.249C>G | synonymous_variant | 0.14 |
whiB7 | 3568437 | c.243T>G | synonymous_variant | 0.12 |
fbiB | 3642576 | p.Val348Ile | missense_variant | 0.16 |
clpC1 | 4040235 | p.Gly157Ala | missense_variant | 0.15 |
clpC1 | 4040242 | p.Thr155Pro | missense_variant | 0.14 |
clpC1 | 4040249 | p.Glu152Asp | missense_variant | 0.17 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246574 | p.Ala21Trp | missense_variant | 0.16 |
embB | 4247013 | p.Pro167Arg | missense_variant | 0.14 |
embB | 4247028 | p.Leu172Arg | missense_variant | 0.16 |
ethR | 4328030 | p.Ala161Gly | missense_variant | 0.14 |
ethR | 4328045 | p.Leu166Gln | missense_variant | 0.16 |
ethA | 4328378 | c.-905G>C | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |