Run ID: ERR4831850
Sample name:
Date: 20-10-2023 13:04:14
Number of reads: 2631969
Percentage reads mapped: 97.08
Strain: lineage4.1.2
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | R | katG p.Ser315Thr (1.00) |
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | ||
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 |
lineage4.1 | Euro-American | T;X;H | None | 0.97 |
lineage4.1.2 | Euro-American | T;H | None | 0.98 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
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 |
fgd1 | 490892 | p.Val37Gly | missense_variant | 1.0 |
rpoC | 763031 | c.-339T>G | upstream_gene_variant | 0.1 |
rpoC | 763040 | c.-330C>G | upstream_gene_variant | 0.1 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 0.98 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
embR | 1417140 | p.Ala70Ser | missense_variant | 0.97 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 0.98 |
rrs | 1472846 | n.1001C>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472847 | n.1002G>A | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472848 | n.1003T>C | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472860 | n.1015C>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472861 | n.1016G>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1473082 | n.1237G>A | non_coding_transcript_exon_variant | 0.18 |
fabG1 | 1673249 | c.-191C>T | upstream_gene_variant | 0.98 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169202 | p.Ser471Ala | missense_variant | 0.92 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
folC | 2747022 | p.Val193Ile | missense_variant | 0.93 |
Rv2752c | 3065377 | p.Val272Ala | missense_variant | 0.96 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3449642 | p.Asn380Ser | missense_variant | 0.98 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fbiA | 3641164 | p.Ile208Val | missense_variant | 0.95 |
ddn | 3986755 | c.-89G>C | upstream_gene_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
ethA | 4327265 | p.Thr70Ser | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408048 | p.Cys52Phe | missense_variant | 0.97 |