Run ID: ERR10748574
Sample name:
Date: 31-03-2023 10:59:21
Number of reads: 2849112
Percentage reads mapped: 99.24
Strain: lineage3.1.1
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage3 | East-African-Indian | CAS | RD750 | 0.94 |
lineage3.1 | East-African-Indian | Non-CAS1-Delhi | RD750 | 0.87 |
lineage3.1.1 | East-African-Indian | CAS1-Kili | RD750 | 0.94 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.97 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 0.99 | isoniazid |
pncA | 2289038 | p.Trp68Cys | missense_variant | 0.92 | pyrazinamide |
embB | 4247431 | p.Met306Ile | missense_variant | 0.96 | ethambutol |
gid | 4408095 | c.107delT | frameshift_variant | 0.93 | streptomycin |
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 | 0.98 |
rpoB | 759746 | c.-61C>T | upstream_gene_variant | 0.92 |
rpoC | 762434 | c.-936T>G | upstream_gene_variant | 0.91 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.99 |
rpoC | 764819 | p.Trp484Gly | missense_variant | 0.9 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 0.96 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 0.14 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 0.98 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2170461 | p.Gly51Glu | missense_variant | 0.95 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289047 | c.195C>T | synonymous_variant | 0.93 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 0.92 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 0.95 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.18 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.68 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.11 |
embC | 4240172 | p.Val104Met | missense_variant | 0.95 |
embC | 4240409 | p.Pro183Ala | missense_variant | 0.18 |
embC | 4241562 | p.Arg567His | missense_variant | 0.94 |
embC | 4242075 | p.Arg738Gln | missense_variant | 0.97 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4248324 | p.Ala604Gly | missense_variant | 0.18 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.99 |