Run ID: ERR1213874
Sample name:
Date: 19-10-2023 20:50:44
Number of reads: 7628449
Percentage reads mapped: 99.06
Strain: lineage2.2.1
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | R | rpoB p.Ser450Leu (0.99) |
Isoniazid | R | katG p.Ser315Thr (1.00) |
Ethambutol | R | embB p.Met306Val (1.00) |
Pyrazinamide | R | pncA c.-224_*330del (0.99) |
Streptomycin | ||
Fluoroquinolones | ||
Moxifloxacin | ||
Ofloxacin | ||
Levofloxacin | ||
Ciprofloxacin | ||
Aminoglycosides | ||
Amikacin | ||
Capreomycin | ||
Kanamycin | ||
Cycloserine | ||
Ethionamide | ||
Clofazimine | ||
Para-aminosalicylic_acid | ||
Delamanid | ||
Bedaquiline | ||
Linezolid |
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 0.99 |
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 |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.99 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
embB | 4247429 | p.Met306Val | missense_variant | 1.0 | ethambutol |
pncA | 2288350 | c.-224_*330del | transcript_ablation | 0.99 | 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 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
ccsA | 620625 | p.Ile245Met | missense_variant | 0.98 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.98 |
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 | 0.99 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1473632 | n.-26G>A | upstream_gene_variant | 1.0 |
rrl | 1473752 | n.95G>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1473806 | n.149C>T | non_coding_transcript_exon_variant | 0.3 |
rrl | 1473815 | n.158T>C | non_coding_transcript_exon_variant | 0.31 |
rrl | 1473836 | n.179A>G | non_coding_transcript_exon_variant | 0.28 |
rrl | 1473876 | n.219G>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1473877 | n.220G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1473943 | n.286G>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1473944 | n.287G>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1473995 | n.338G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474028 | n.371T>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474029 | n.372G>A | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474034 | n.377G>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474040 | n.383G>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474083 | n.426C>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474111 | n.454T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474140 | n.483C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474151 | n.494C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474181 | n.524C>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474831 | n.1174A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475202 | n.1545G>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475276 | n.1619T>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475289 | n.1632G>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475291 | n.1634A>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475297 | n.1640C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1475315 | n.1658A>C | non_coding_transcript_exon_variant | 0.23 |
rrl | 1475446 | n.1789G>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475505 | n.1848G>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475526 | n.1869C>A | non_coding_transcript_exon_variant | 0.14 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 0.99 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.99 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
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 | 1.0 |
embC | 4240423 | c.561G>A | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embA | 4245966 | p.Phe912Leu | missense_variant | 1.0 |
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 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |