Run ID: SRR23310936
Sample name:
Date: 14-03-2023 03:45:05
Number of reads: 3598648
Percentage reads mapped: 99.59
Strain: lineage2.2
Drug-resistance: Pre-XDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 0.99 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrB | 6737 | p.Thr500Pro | missense_variant | 0.11 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761095 | p.Leu430Pro | missense_variant | 0.14 | rifampicin |
rpoB | 761110 | p.Asp435Gly | missense_variant | 0.11 | rifampicin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.91 | rifampicin |
rpoB | 762089 | p.Glu761Asp | missense_variant | 0.91 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 0.11 | streptomycin |
rrs | 1472362 | n.517C>T | non_coding_transcript_exon_variant | 0.99 | streptomycin |
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 0.11 | isoniazid, ethionamide |
katG | 2155168 | p.Ser315Thr | missense_variant | 0.98 | isoniazid |
pncA | 2289100 | p.Lys48Glu | missense_variant | 0.91 | pyrazinamide |
eis | 2715369 | c.-37G>T | upstream_gene_variant | 1.0 | kanamycin |
embB | 4247553 | p.Ser347Ile | missense_variant | 0.13 | ethambutol |
embB | 4247574 | p.Asp354Ala | missense_variant | 0.88 | ethambutol |
ethA | 4327480 | c.-7T>C | upstream_gene_variant | 0.9 | ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7581 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9647 | c.2346C>G | synonymous_variant | 0.21 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 0.98 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
mshA | 576613 | c.1266A>C | synonymous_variant | 0.18 |
mshA | 576616 | c.1269G>C | synonymous_variant | 0.25 |
ccsA | 620625 | p.Ile245Met | missense_variant | 0.99 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 766645 | p.Glu1092Asp | missense_variant | 0.99 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 0.99 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 0.99 |
mmpL5 | 777883 | p.Gly200Arg | missense_variant | 0.17 |
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 |
fabG1 | 1673553 | p.Asp38Glu | missense_variant | 0.19 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 0.97 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 0.99 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2170065 | p.Ala183Gly | missense_variant | 0.31 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2519071 | p.Asp319Glu | missense_variant | 0.13 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087818 | p.Cys333Trp | missense_variant | 0.12 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.69 |
fbiD | 3339751 | p.Ala212Pro | missense_variant | 0.14 |
fprA | 3473996 | c.-10_-9insA | upstream_gene_variant | 0.99 |
whiB7 | 3568428 | c.252A>G | synonymous_variant | 0.26 |
Rv3236c | 3612701 | p.Asp139Gly | missense_variant | 0.11 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
rpoA | 3878597 | c.-90G>C | upstream_gene_variant | 0.42 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.71 |
embC | 4240409 | p.Pro183Ala | missense_variant | 0.21 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243217 | c.-16C>A | upstream_gene_variant | 0.89 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embB | 4246527 | p.Ala5Gly | missense_variant | 0.22 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.13 |
embB | 4248328 | c.1815G>C | synonymous_variant | 0.15 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
whiB6 | 4338563 | c.-42G>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.99 |
gid | 4407927 | p.Glu92Asp | missense_variant | 0.98 |