Run ID: SRR16509481
Sample name:
Date: 03-04-2023 17:43:51
Number of reads: 2634186
Percentage reads mapped: 99.49
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 | 1.0 | rifampicin |
rpsL | 781822 | p.Lys88Met | missense_variant | 1.0 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
embB | 4247729 | p.Gly406Ser | missense_variant | 1.0 | ethambutol |
pncA | 2286621 | c.-2294_*2059del | transcript_ablation | 1.0 | pyrazinamide |
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 | 0.99 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576541 | c.1195_1196dupGC | frameshift_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 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 0.98 |
rrl | 1474921 | n.1264C>T | non_coding_transcript_exon_variant | 1.0 |
inhA | 1674952 | p.Pro251Ala | missense_variant | 0.13 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.22 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 1.0 |
ahpC | 2726580 | p.Val130Met | missense_variant | 1.0 |
folC | 2747470 | p.Ile43Ala | missense_variant | 1.0 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.41 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 0.98 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3449854 | p.Met451Val | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
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 | 0.16 |
ethR | 4326997 | c.-552C>T | upstream_gene_variant | 1.0 |
ethR | 4327414 | c.-135G>A | upstream_gene_variant | 1.0 |
ethR | 4327986 | p.Ile146Met | missense_variant | 1.0 |
whiB6 | 4338343 | p.Trp60* | stop_gained | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |