Run ID: SRR832980
Sample name:
Date: 04-04-2023 20:50:54
Number of reads: 4643645
Percentage reads mapped: 99.41
Strain: lineage4.3.3
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 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.3 | Euro-American (LAM) | LAM;T | RD115 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.98 | rifampicin |
fabG1 | 1673432 | c.-8T>A | upstream_gene_variant | 1.0 | isoniazid |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288826 | p.Val139Gly | missense_variant | 0.99 | pyrazinamide |
embB | 4247429 | p.Met306Val | missense_variant | 1.0 | ethambutol |
ethA | 4327484 | c.-11A>G | upstream_gene_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 | 8040 | p.Gly247Ser | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
ccsA | 619934 | p.Asp15Gly | missense_variant | 0.2 |
rpoB | 761496 | p.Tyr564His | missense_variant | 1.0 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1305091 | c.2164delC | frameshift_variant | 0.99 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1476056 | n.2399G>A | non_coding_transcript_exon_variant | 0.99 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.26 |
PPE35 | 2169866 | c.747G>C | synonymous_variant | 0.19 |
PPE35 | 2170442 | p.Trp57Cys | missense_variant | 0.17 |
Rv1979c | 2223051 | p.Glu38Asp | missense_variant | 0.99 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 0.99 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 1.0 |
eis | 2714919 | p.His138Gln | missense_variant | 0.12 |
Rv2752c | 3065824 | p.Pro123Leu | missense_variant | 1.0 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.17 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
rpoA | 3878574 | c.-67G>C | upstream_gene_variant | 0.25 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.35 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407922 | p.Leu94Gln | missense_variant | 1.0 |
gid | 4408042 | p.Val54Ala | missense_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |
gid | 4407912 | c.160_290del | frameshift_variant | 1.0 |