Run ID: SRR6797691
Sample name:
Date: 15-08-2023 08:40:21
Number of reads: 1203081
Percentage reads mapped: 99.37
Strain: lineage1.2.2.2
Drug-resistance: Sensitive
| Drug | Resistance | Supporting mutations |
|---|---|---|
| Rifampicin | ||
| Isoniazid | ||
| Ethambutol | ||
| Pyrazinamide | ||
| 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 |
|---|---|---|---|---|
| lineage1 | Indo-Oceanic | EAI | RD239 | 1.0 |
| lineage1.2.2 | Indo-Oceanic | EAI1 | RD239 | 1.0 |
| lineage1.2.2.2 | Indo-Oceanic | NA | RD239 | 1.0 |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
|---|
| Gene | Chromosome position | Mutation | Type | Estimated fraction |
|---|---|---|---|---|
| gyrB | 5075 | c.-165C>T | upstream_gene_variant | 1.0 |
| gyrB | 5932 | c.693G>A | synonymous_variant | 1.0 |
| gyrB | 6112 | p.Met291Ile | missense_variant | 1.0 |
| gyrA | 7268 | c.-34C>T | upstream_gene_variant | 1.0 |
| gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
| gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
| gyrA | 8423 | c.1122G>A | synonymous_variant | 1.0 |
| gyrA | 8452 | p.Ala384Val | missense_variant | 1.0 |
| gyrA | 8519 | c.1218A>G | synonymous_variant | 1.0 |
| gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
| gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
| fgd1 | 491027 | p.Asn82Thr | missense_variant | 0.36 |
| fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
| rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
| rpoC | 763884 | p.Ala172Val | missense_variant | 1.0 |
| rpoC | 763886 | c.517C>A | synonymous_variant | 1.0 |
| rpoC | 764086 | c.717C>T | synonymous_variant | 1.0 |
| mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
| mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
| mmpL5 | 777157 | c.1324C>A | synonymous_variant | 1.0 |
| rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
| fbiC | 1302890 | c.-41G>T | upstream_gene_variant | 1.0 |
| embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
| rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
| rrs | 1472115 | n.270C>T | non_coding_transcript_exon_variant | 1.0 |
| rrl | 1474799 | n.1142G>A | non_coding_transcript_exon_variant | 1.0 |
| rrl | 1476149 | n.2492C>T | non_coding_transcript_exon_variant | 1.0 |
| tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
| katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
| PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
| PPE35 | 2168742 | p.Gly624Asp | missense_variant | 1.0 |
| Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
| Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
| kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
| eis | 2714753 | p.Gln194* | stop_gained | 1.0 |
| ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 1.0 |
| ald | 3086788 | c.-32T>C | upstream_gene_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 |
| fbiA | 3640375 | c.-168C>A | 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 | 4245969 | p.Pro913Ser | missense_variant | 1.0 |
| embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
| embB | 4249738 | c.3225C>A | synonymous_variant | 1.0 |
| ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
| aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
| ubiA | 4269824 | p.Asp4Asn | missense_variant | 1.0 |
| ethA | 4326148 | c.1326G>T | synonymous_variant | 1.0 |
| ethA | 4326439 | p.Asn345Lys | missense_variant | 1.0 |
| ethR | 4328039 | p.Arg164Leu | missense_variant | 1.0 |
| whiB6 | 4338203 | p.Arg107Cys | missense_variant | 1.0 |
| whiB6 | 4338507 | c.15C>T | synonymous_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 | 1.0 |
| gid | 4407873 | c.330G>T | synonymous_variant | 1.0 |
