Run ID: DRR130148
Sample name:
Date: 31-03-2023 07:06:51
Number of reads: 2800144
Percentage reads mapped: 99.26
Strain: lineage1.2.1.2.1
Drug-resistance: MDR-TB
| Drug | Resistance | Supporting mutations |
|---|
| Lineage | Family | Main Spoligotype | RDs | Frequency |
|---|---|---|---|---|
| lineage1 | Indo-Oceanic | EAI | RD239 | 1.0 |
| lineage1.2.1 | Indo-Oceanic | EAI2 | RD239 | 1.0 |
| lineage1.2.1.2 | Indo-Oceanic | NA | RD239 | 1.0 |
| lineage1.2.1.2.1 | Indo-Oceanic | NA | RD239 | 1.0 |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
|---|---|---|---|---|---|
| rpoB | 761139 | p.His445Tyr | missense_variant | 1.0 | rifampicin |
| rpsL | 781822 | p.Lys88Arg | missense_variant | 1.0 | streptomycin |
| fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 0.99 | isoniazid, ethionamide |
| katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
| folC | 2747151 | p.Ser150Gly | missense_variant | 1.0 | para-aminosalicylic_acid |
| embB | 4247429 | p.Met306Leu | missense_variant | 0.99 | ethambutol |
| embB | 4247730 | p.Gly406Asp | missense_variant | 1.0 | ethambutol |
| Gene | Chromosome position | Mutation | Type | Estimated fraction |
|---|---|---|---|---|
| gyrB | 6112 | p.Met291Ile | missense_variant | 1.0 |
| gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
| gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
| gyrA | 8452 | p.Ala384Val | missense_variant | 0.99 |
| gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
| gyrA | 9260 | c.1959G>C | synonymous_variant | 0.99 |
| gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
| fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
| mshA | 575368 | c.21T>C | synonymous_variant | 0.99 |
| rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
| rpoC | 763531 | c.162G>C | synonymous_variant | 1.0 |
| rpoC | 763884 | p.Ala172Val | missense_variant | 1.0 |
| rpoC | 763886 | c.517C>A | synonymous_variant | 1.0 |
| rpoC | 764809 | c.1440C>T | synonymous_variant | 1.0 |
| mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
| mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
| rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
| fbiC | 1302821 | c.-110G>A | upstream_gene_variant | 1.0 |
| Rv1258c | 1406312 | c.1029T>C | synonymous_variant | 1.0 |
| embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
| atpE | 1460907 | c.-138T>C | upstream_gene_variant | 1.0 |
| rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
| inhA | 1674162 | c.-40C>T | upstream_gene_variant | 0.99 |
| tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
| katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
| katG | 2156484 | c.-373A>G | upstream_gene_variant | 1.0 |
| PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
| Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 0.99 |
| Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
| kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
| kasA | 2519048 | p.Gly312Ser | missense_variant | 1.0 |
| ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 0.99 |
| ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
| fbiD | 3339417 | c.300A>G | synonymous_variant | 1.0 |
| Rv3083 | 3448714 | p.Asp71His | missense_variant | 1.0 |
| fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
| fprA | 3474597 | c.591C>A | synonymous_variant | 1.0 |
| fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
| whiB7 | 3568488 | c.191delG | frameshift_variant | 1.0 |
| fbiA | 3640371 | c.-172G>T | upstream_gene_variant | 1.0 |
| fbiB | 3640557 | c.-978T>C | upstream_gene_variant | 1.0 |
| clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
| embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
| embC | 4241042 | p.Asn394Asp | missense_variant | 1.0 |
| embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
| embA | 4243580 | c.348G>A | synonymous_variant | 1.0 |
| embA | 4244420 | c.1188G>C | synonymous_variant | 1.0 |
| embA | 4245969 | p.Pro913Ser | missense_variant | 0.99 |
| embB | 4247578 | c.1065G>A | synonymous_variant | 0.99 |
| embB | 4247646 | p.Glu378Ala | missense_variant | 0.99 |
| ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
| aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
| ubiA | 4269864 | c.-32delG | upstream_gene_variant | 0.99 |
| whiB6 | 4338361 | p.Arg54Gln | missense_variant | 1.0 |
| whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
| whiB6 | 4338603 | c.-82C>T | upstream_gene_variant | 1.0 |
| gid | 4407588 | c.615A>G | synonymous_variant | 0.99 |
| gid | 4407873 | c.330G>T | synonymous_variant | 1.0 |
| gid | 4407956 | p.Arg83Gly | missense_variant | 1.0 |
