Run ID: DRR130141
Sample name:
Date: 31-03-2023 07:06:16
Number of reads: 1320017
Percentage reads mapped: 99.24
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 | 0.9 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7582 | p.Asp94Gly | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761151 | p.Leu449Met | missense_variant | 0.87 | rifampicin |
rpoB | 761155 | p.Ser450Phe | missense_variant | 1.0 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 0.96 | isoniazid, ethionamide |
tlyA | 1918597 | c.660delG | frameshift_variant | 0.95 | capreomycin |
eis | 2715342 | c.-10G>A | upstream_gene_variant | 0.76 | kanamycin |
thyX | 3067961 | c.-16C>T | upstream_gene_variant | 0.97 | para-aminosalicylic_acid |
embB | 4247429 | p.Met306Val | missense_variant | 1.0 | ethambutol |
ethA | 4326419 | c.1054delG | frameshift_variant | 0.92 | 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 | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 765121 | c.1752G>A | synonymous_variant | 0.91 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpS5 | 778706 | p.Val67Gly | missense_variant | 0.89 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1302789 | c.-142C>T | upstream_gene_variant | 0.92 |
fbiC | 1303882 | p.Val318Ile | missense_variant | 0.12 |
fbiC | 1304443 | p.Ala505Thr | missense_variant | 0.96 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 0.99 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2155607 | p.Gly169Ser | missense_variant | 0.89 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
thyA | 3074061 | c.339_410delCGCGGCGCTGGATTTGCTGCGCACCGATCCCGATTCCCGGCGCATCATCGTGTCGGCCTGGAACGTCGGCGA | disruptive_inframe_deletion | 0.97 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 0.11 |
clpC1 | 4040841 | c.-138delG | upstream_gene_variant | 0.97 |
embC | 4240418 | p.Gly186Cys | missense_variant | 0.94 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246088 | c.-426A>G | upstream_gene_variant | 0.95 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
thyA | 3074061 | c.338_410delNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNA | frameshift_variant | 1.0 |