Run ID: ERR1034741
Sample name:
Date: 31-03-2023 09:36:49
Number of reads: 21976750
Percentage reads mapped: 99.58
Strain: lineage4.1.1.3
Drug-resistance: HR-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 | 0.64 |
lineage4.1.1 | Euro-American (X-type) | X1;X2;X3 | None | 0.66 |
lineage4.1.1.3 | Euro-American (X-type) | X1;X3 | RD193 | 0.65 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
fabG1 | 1673423 | c.-17G>T | upstream_gene_variant | 0.36 | isoniazid, ethionamide |
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 | 761889 | p.Val695Leu | missense_variant | 0.38 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 0.64 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpS5 | 778509 | p.Ala133Thr | missense_variant | 0.65 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 801009 | c.201A>G | synonymous_variant | 0.32 |
fbiC | 1302954 | c.24G>A | synonymous_variant | 0.65 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
inhA | 1674952 | p.Pro251Ala | missense_variant | 0.14 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154678 | c.1434G>C | synonymous_variant | 0.62 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.27 |
PPE35 | 2169405 | p.Asn403Ser | missense_variant | 0.68 |
Rv1979c | 2223214 | c.-50A>C | upstream_gene_variant | 0.34 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ahpC | 2726409 | p.Asp73His | missense_variant | 0.63 |
Rv2752c | 3065517 | c.675C>T | synonymous_variant | 0.35 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.3 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 0.66 |
Rv3083 | 3448439 | c.-64delA | upstream_gene_variant | 0.35 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 0.61 |
fprA | 3474299 | p.Asp98Gly | missense_variant | 0.34 |
rpoA | 3878595 | c.-88C>T | upstream_gene_variant | 0.12 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.13 |
embC | 4242425 | p.Arg855Gly | missense_variant | 0.17 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 0.66 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.27 |
embB | 4249408 | c.2895G>A | synonymous_variant | 0.66 |
embB | 4249678 | c.3165C>A | synonymous_variant | 0.7 |
ethA | 4328317 | c.-844C>T | upstream_gene_variant | 0.37 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |