Run ID: SRR5153257
Sample name:
Date: 04-04-2023 09:17:50
Number of reads: 8397739
Percentage reads mapped: 99.22
Strain: lineage4.2.1.1
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 0.98 |
lineage4.2 | Euro-American | H;T;LAM | None | 0.95 |
lineage4.2.1 | Euro-American (TUR) | H3;H4 | None | 0.94 |
lineage4.2.1.1 | Euro-American (TUR) | H3;H4 | None | 0.93 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.99 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 0.95 | isoniazid, ethionamide |
katG | 2155168 | p.Ser315Thr | missense_variant | 0.99 | isoniazid |
pncA | 2288850 | c.390_391dupGG | frameshift_variant | 0.9 | pyrazinamide, pyrazinamide |
embA | 4243217 | c.-16C>T | upstream_gene_variant | 0.96 | ethambutol |
embB | 4247429 | p.Met306Val | missense_variant | 0.97 | ethambutol |
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 |
rpoC | 764817 | p.Val483Gly | missense_variant | 0.87 |
rpoC | 765104 | c.1735C>T | synonymous_variant | 0.93 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777451 | p.Val344Leu | missense_variant | 0.97 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1407155 | c.186C>T | synonymous_variant | 0.96 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169879 | p.Phe245Cys | missense_variant | 0.96 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289680 | c.-439T>C | upstream_gene_variant | 0.93 |
ald | 3086742 | c.-78A>C | upstream_gene_variant | 0.92 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
ethA | 4327415 | p.Ala20Val | missense_variant | 0.96 |
whiB6 | 4338594 | c.-73T>G | upstream_gene_variant | 0.97 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408213 | c.-11C>T | upstream_gene_variant | 0.96 |