Run ID: SRR23562880
Sample name:
Date: 13-04-2023 18:46:13
Number of reads: 7674186
Percentage reads mapped: 99.28
Strain: La1.4
Drug-resistance: Other
| Drug | Resistance | Supporting mutations |
|---|---|---|
| Rifampicin | ||
| Isoniazid | ||
| Ethambutol | ||
| Pyrazinamide | R | pncA p.His57Asp (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 |
|---|---|---|---|---|
| La1 | M.bovis | None | None | 1.0 |
| La1.4 | M.bovis | None | None | 0.99 |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
|---|---|---|---|---|---|
| pncA | 2289073 | p.His57Asp | missense_variant | 0.99 | pyrazinamide |
| Gene | Chromosome position | Mutation | Type | Estimated fraction |
|---|---|---|---|---|
| gyrB | 5752 | c.513G>A | synonymous_variant | 1.0 |
| gyrA | 6406 | c.-896C>T | upstream_gene_variant | 0.99 |
| gyrB | 6446 | p.Ala403Ser | missense_variant | 0.99 |
| gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
| gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
| gyrA | 8285 | c.984C>T | synonymous_variant | 1.0 |
| gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
| gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
| fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
| ccsA | 620384 | p.Pro165Leu | missense_variant | 0.99 |
| rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
| mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
| mmpL5 | 776100 | p.Thr794Ile | missense_variant | 0.99 |
| rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
| fbiC | 1302899 | c.-32A>G | upstream_gene_variant | 0.99 |
| rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
| rrs | 1471786 | n.-60T>G | upstream_gene_variant | 0.21 |
| rpsA | 1834859 | p.Ala440Thr | missense_variant | 1.0 |
| tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
| ndh | 2102706 | p.Asp113His | missense_variant | 1.0 |
| ndh | 2103173 | c.-132delG | upstream_gene_variant | 0.99 |
| katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
| katG | 2155503 | c.609C>T | synonymous_variant | 1.0 |
| katG | 2156025 | c.87C>A | synonymous_variant | 0.99 |
| PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
| PPE35 | 2168011 | p.Ser868Arg | missense_variant | 1.0 |
| PPE35 | 2168814 | c.1798dupA | frameshift_variant | 0.98 |
| Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
| Rv1979c | 2222661 | c.504A>G | synonymous_variant | 0.99 |
| Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
| kasA | 2518132 | c.18C>T | synonymous_variant | 0.99 |
| Rv2752c | 3065372 | p.Arg274Gly | missense_variant | 1.0 |
| ald | 3086728 | c.-92C>T | upstream_gene_variant | 0.98 |
| ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
| ald | 3087084 | c.266delA | frameshift_variant | 0.99 |
| fbiD | 3339726 | c.609A>C | synonymous_variant | 0.17 |
| Rv3083 | 3448783 | p.Val94Ile | missense_variant | 0.99 |
| fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
| fprA | 3474427 | p.Val141Ile | missense_variant | 1.0 |
| fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
| alr | 3841474 | c.-54T>G | upstream_gene_variant | 0.99 |
| rpoA | 3878609 | c.-102T>G | upstream_gene_variant | 0.16 |
| rpoA | 3878613 | c.-106A>C | upstream_gene_variant | 0.15 |
| rpoA | 3878630 | c.-124delC | upstream_gene_variant | 1.0 |
| clpC1 | 4038403 | c.2302T>C | synonymous_variant | 1.0 |
| clpC1 | 4040249 | p.Glu152Asp | missense_variant | 0.12 |
| clpC1 | 4040262 | p.Lys148Thr | missense_variant | 0.13 |
| clpC1 | 4040886 | c.-182T>G | upstream_gene_variant | 0.13 |
| embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
| embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
| embA | 4242970 | c.-263C>T | upstream_gene_variant | 0.99 |
| embA | 4244220 | c.988C>T | synonymous_variant | 0.99 |
| embB | 4246551 | p.Asn13Ser | missense_variant | 1.0 |
| embB | 4246569 | p.Ala19Gly | missense_variant | 0.15 |
| embB | 4246595 | p.Trp28Gly | missense_variant | 0.23 |
| embB | 4246864 | c.351C>T | synonymous_variant | 0.99 |
| embB | 4247028 | p.Leu172Arg | missense_variant | 0.25 |
| embB | 4247033 | p.Ser174Arg | missense_variant | 0.16 |
| embB | 4247039 | p.Phe176Val | missense_variant | 0.18 |
| embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
| embB | 4248319 | c.1806A>C | synonymous_variant | 0.16 |
| aftB | 4267858 | p.Ile327Val | missense_variant | 1.0 |
| aftB | 4269351 | c.-515C>T | upstream_gene_variant | 1.0 |
| ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
| aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
| ubiA | 4269858 | c.-25A>C | upstream_gene_variant | 0.18 |
| whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
| gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
