Run ID: DRR130241
Sample name:
Date: 31-03-2023 07:12:18
Number of reads: 3995538
Percentage reads mapped: 99.5
Strain: lineage2.2.1
Drug-resistance: Pre-XDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 1.0 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 1.0 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7570 | p.Ala90Val | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rrs | 1472359 | n.514A>C | non_coding_transcript_exon_variant | 1.0 | streptomycin |
rrs | 1473246 | n.1401A>G | non_coding_transcript_exon_variant | 1.0 | kanamycin, capreomycin, aminoglycosides, amikacin |
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
thyA | 3074224 | p.Trp83* | stop_gained | 1.0 | para-aminosalicylic_acid |
alr | 3841409 | p.Phe4Leu | missense_variant | 0.52 | cycloserine |
pncA | 2287447 | c.-701_*1233del | 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 | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
rpoB | 762286 | p.Arg827Leu | missense_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 767007 | p.Ala1213Glu | missense_variant | 0.44 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1473893 | n.236T>C | non_coding_transcript_exon_variant | 1.0 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918307 | p.Arg123Leu | missense_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2154874 | p.Tyr413Cys | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289941 | c.-700C>G | upstream_gene_variant | 1.0 |
pncA | 2289959 | c.-718A>G | upstream_gene_variant | 0.11 |
thyX | 3067960 | c.-16_-15insC | upstream_gene_variant | 0.14 |
thyX | 3067988 | c.-43A>C | upstream_gene_variant | 0.53 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087693 | c.877_878dupAC | frameshift_variant | 0.22 |
ald | 3087700 | p.Leu294Gln | missense_variant | 0.25 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
fbiB | 3640879 | c.-656C>T | upstream_gene_variant | 1.0 |
alr | 3841362 | p.Thr20Met | missense_variant | 0.24 |
embC | 4239918 | p.Val19Ala | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243201 | c.-31delC | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
ethA | 4326474 | p.Pro334Ala | missense_variant | 1.0 |
ethA | 4326923 | p.Gly184Asp | missense_variant | 1.0 |
whiB6 | 4338365 | p.Cys53Gly | missense_variant | 1.0 |
whiB6 | 4338504 | c.18G>A | synonymous_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |