Run ID: SRR10185946
Sample name:
Date: 02-04-2023 16:10:42
Number of reads: 5860227
Percentage reads mapped: 97.93
Strain: lineage2.1
Drug-resistance: Pre-XDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 1.0 |
lineage2.1 | East-Asian (non-Beijing) | None | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7572 | p.Ser91Pro | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
tlyA | 1918300 | c.363_364dupGC | frameshift_variant | 0.99 | capreomycin |
katG | 2155689 | p.Leu141Phe | missense_variant | 1.0 | isoniazid |
pncA | 2288757 | p.Gly162Asp | missense_variant | 1.0 | pyrazinamide |
eis | 2715344 | c.-12C>T | upstream_gene_variant | 0.11 | kanamycin |
eis | 2715346 | c.-14C>T | upstream_gene_variant | 0.89 | kanamycin, amikacin |
embB | 4248003 | p.Gln497Arg | missense_variant | 1.0 | ethambutol |
ethA | 4326609 | c.864dupC | frameshift_variant | 1.0 | ethionamide, 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 | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 0.99 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 765121 | c.1752G>A | synonymous_variant | 1.0 |
rpoC | 765570 | p.Ala734Val | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 0.99 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1304443 | p.Ala505Thr | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
eis | 2715268 | p.Ala22Gly | missense_variant | 1.0 |
ahpC | 2726338 | p.Val49Gly | missense_variant | 0.27 |
thyX | 3067446 | p.Ala167Val | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087255 | p.Ala146Thr | missense_variant | 0.19 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
alr | 3840259 | p.Tyr388Asp | missense_variant | 0.92 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246088 | c.-426A>G | upstream_gene_variant | 1.0 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338600 | c.-79T>G | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4408114 | p.Gly30Val | missense_variant | 1.0 |