Run ID: ERR2517102
Sample name:
Date: 19-10-2023 23:22:47
Number of reads: 1117008
Percentage reads mapped: 99.75
Strain: La3
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 |
|---|---|---|---|---|
| La3 | M.orygis | None | None | 1.0 |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
|---|
| Gene | Chromosome position | Mutation | Type | Estimated fraction |
|---|---|---|---|---|
| gyrB | 5516 | p.Ile93Val | missense_variant | 1.0 |
| gyrB | 6109 | c.870G>A | synonymous_variant | 1.0 |
| gyrB | 6446 | p.Ala403Ser | missense_variant | 1.0 |
| gyrB | 6717 | p.Ile493Thr | missense_variant | 1.0 |
| gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
| gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
| gyrA | 8930 | c.1629C>T | synonymous_variant | 1.0 |
| gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
| gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
| fgd1 | 490661 | c.-122_-121insGCGAGC | upstream_gene_variant | 1.0 |
| fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
| fgd1 | 491749 | p.Leu323Phe | missense_variant | 1.0 |
| rpoB | 762352 | c.2557_2562dupGACGAG | conservative_inframe_insertion | 1.0 |
| rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
| mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
| mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
| mmpL5 | 778086 | c.394dupG | frameshift_variant | 1.0 |
| rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
| fbiC | 1302899 | c.-32A>G | upstream_gene_variant | 1.0 |
| fbiC | 1304842 | p.Ile638Leu | missense_variant | 1.0 |
| rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
| rrl | 1475539 | n.1882A>G | non_coding_transcript_exon_variant | 1.0 |
| rrl | 1476664 | n.3007T>G | non_coding_transcript_exon_variant | 1.0 |
| inhA | 1673680 | c.-522C>G | upstream_gene_variant | 1.0 |
| rpsA | 1834363 | c.822G>A | synonymous_variant | 1.0 |
| tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
| katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
| katG | 2155503 | c.609C>T | synonymous_variant | 1.0 |
| PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
| PPE35 | 2169279 | c.1312_1333delAACAATGGTGTCTTTTACCGTG | frameshift_variant | 1.0 |
| PPE35 | 2170669 | c.-57G>A | upstream_gene_variant | 1.0 |
| Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
| Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
| pncA | 2289978 | c.-737T>G | upstream_gene_variant | 1.0 |
| kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
| ahpC | 2726378 | c.186T>A | synonymous_variant | 1.0 |
| folC | 2746391 | p.Val403Ala | missense_variant | 1.0 |
| Rv2752c | 3067009 | c.-818A>G | upstream_gene_variant | 1.0 |
| thyX | 3067812 | p.Gln45Arg | missense_variant | 1.0 |
| ald | 3086728 | c.-92C>T | upstream_gene_variant | 1.0 |
| ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
| ald | 3087084 | c.266delA | frameshift_variant | 1.0 |
| Rv3083 | 3448783 | p.Val94Ile | missense_variant | 1.0 |
| fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
| fprA | 3475113 | c.1107G>A | synonymous_variant | 1.0 |
| fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
| fprA | 3475323 | c.1317T>C | synonymous_variant | 1.0 |
| Rv3236c | 3612694 | c.423T>C | synonymous_variant | 1.0 |
| Rv3236c | 3613302 | c.-186G>A | upstream_gene_variant | 1.0 |
| fbiB | 3641584 | p.Val17Ala | missense_variant | 1.0 |
| clpC1 | 4039853 | c.852G>A | synonymous_variant | 1.0 |
| panD | 4044134 | p.Asp50Asn | missense_variant | 1.0 |
| embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
| embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
| embA | 4244154 | p.Thr308Ala | missense_variant | 1.0 |
| embA | 4244220 | c.988C>T | synonymous_variant | 1.0 |
| embB | 4246864 | c.351C>T | synonymous_variant | 1.0 |
| embB | 4247646 | p.Glu378Ala | 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 |
| ethA | 4327042 | p.Asp144Asn | missense_variant | 1.0 |
| ethA | 4328211 | c.-738A>G | upstream_gene_variant | 1.0 |
| whiB6 | 4338269 | p.Gly85Ser | missense_variant | 1.0 |
| whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
| gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
