Run ID: SRR23310988
Sample name:
Date: 14-03-2023 05:44:49
Number of reads: 2270078
Percentage reads mapped: 99.52
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 | 1.0 |
lineage4.2 | Euro-American | H;T;LAM | None | 0.98 |
lineage4.2.1 | Euro-American (TUR) | H3;H4 | None | 0.99 |
lineage4.2.1.1 | Euro-American (TUR) | H3;H4 | None | 0.97 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rpsL | 781822 | p.Lys88Arg | missense_variant | 0.96 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289159 | p.Ala28Asp | missense_variant | 0.43 | pyrazinamide |
pncA | 2289193 | c.48_49insA | frameshift_variant | 0.54 | pyrazinamide |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
ethA | 4326419 | c.1051delG | frameshift_variant | 0.49 | ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 0.99 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9647 | c.2346C>G | synonymous_variant | 0.19 |
mshA | 576616 | c.1269G>C | synonymous_variant | 0.33 |
rpoC | 764817 | p.Val483Gly | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776802 | p.Met560Thr | missense_variant | 0.99 |
mmpL5 | 777451 | p.Val344Leu | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303485 | c.555C>T | synonymous_variant | 0.53 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
fabG1 | 1673553 | p.Asp38Glu | missense_variant | 0.19 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169879 | p.Phe245Cys | missense_variant | 1.0 |
PPE35 | 2170065 | p.Ala183Gly | missense_variant | 0.45 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.24 |
Rv2752c | 3065958 | c.234G>A | synonymous_variant | 0.99 |
ald | 3086742 | c.-78A>C | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.6 |
fbiD | 3339746 | p.Ala210Gly | missense_variant | 0.6 |
fbiD | 3339751 | p.Ala212Pro | missense_variant | 0.21 |
fprA | 3473996 | c.-10_-9insA | upstream_gene_variant | 1.0 |
whiB7 | 3568428 | c.252A>G | synonymous_variant | 0.2 |
rpoA | 3878597 | c.-90G>C | upstream_gene_variant | 0.22 |
rpoA | 3878637 | c.-130G>C | upstream_gene_variant | 0.75 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.67 |
ddn | 3987092 | p.Glu83Asp | missense_variant | 0.97 |
clpC1 | 4040786 | c.-82G>A | upstream_gene_variant | 1.0 |
embC | 4240409 | p.Pro183Ala | missense_variant | 0.29 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246529 | p.Ser6Arg | missense_variant | 0.25 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.3 |
ethA | 4326716 | p.Cys253Phe | missense_variant | 0.42 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408213 | c.-11C>T | upstream_gene_variant | 0.99 |