Run ID: ERR552182
Sample name:
Date: 18-08-2022 09:22:07
Number of reads: 344070
Percentage reads mapped: 99.58
Strain: lineage4.1.1.3
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.1 | Euro-American | T;X;H | None | 1.0 |
lineage4.1.1 | Euro-American (X-type) | X1;X2;X3 | None | 1.0 |
lineage4.1.1.3 | Euro-American (X-type) | X1;X3 | RD193 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rrs | 1472723 | n.878G>A | non_coding_transcript_exon_variant | 1.0 | streptomycin |
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
ald | 3087278 | c.464delG | frameshift_variant | 1.0 | cycloserine |
embA | 4243217 | c.-16C>G | upstream_gene_variant | 1.0 | ethambutol |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
ethA | 4326279 | c.1192_1194dupGTG | conservative_inframe_insertion | 1.0 | ethionamide |
ethA | 4326604 | c.869dupA | frameshift_variant | 1.0 | ethionamide |
gid | 4407898 | c.304delC | frameshift_variant | 1.0 | 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 |
rpoB | 762285 | p.Arg827Cys | missense_variant | 1.0 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781435 | c.-125G>C | upstream_gene_variant | 1.0 |
rplC | 800857 | p.Phe17Leu | missense_variant | 0.11 |
fbiC | 1304491 | p.Asp521Asn | missense_variant | 0.1 |
fbiC | 1305182 | p.Leu751Ser | missense_variant | 0.13 |
embR | 1417323 | p.Lys9Glu | missense_variant | 0.12 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1475690 | n.2033G>A | non_coding_transcript_exon_variant | 0.14 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918411 | p.Ile158Val | missense_variant | 0.17 |
kasA | 2518863 | p.Thr250Met | missense_variant | 0.15 |
folC | 2746544 | p.Ala352Asp | missense_variant | 0.11 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3338941 | c.-176delG | upstream_gene_variant | 0.11 |
alr | 3840726 | p.Ala232Val | missense_variant | 0.12 |
alr | 3841257 | p.His55Arg | missense_variant | 0.09 |
embC | 4240236 | p.Arg125Gln | missense_variant | 0.15 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embB | 4249408 | c.2895G>A | synonymous_variant | 1.0 |
ethR | 4328090 | p.Arg181Gln | missense_variant | 0.12 |
gid | 4407798 | c.405G>T | synonymous_variant | 1.0 |