Run ID: ERR038754
Sample name:
Date: 31-03-2023 08:41:51
Number of reads: 20100826
Percentage reads mapped: 99.67
Strain: lineage4.4.1.1
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 |
lineage4.4 | Euro-American | S;T | None | 1.0 |
lineage4.4.1 | Euro-American (S-type) | S;T | None | 1.0 |
lineage4.4.1.1 | Euro-American | S;Orphans | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288850 | c.390_391dupGG | frameshift_variant | 1.0 | pyrazinamide, pyrazinamide |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
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 |
rpoC | 762836 | c.-534C>G | upstream_gene_variant | 0.36 |
rpoC | 767123 | p.Val1252Leu | missense_variant | 0.97 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777399 | p.Thr361Arg | missense_variant | 0.18 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
atpE | 1461019 | c.-26C>A | upstream_gene_variant | 0.25 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102990 | p.Val18Ala | missense_variant | 1.0 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.18 |
PPE35 | 2169840 | p.Gly258Asp | missense_variant | 1.0 |
PPE35 | 2169866 | c.747G>C | synonymous_variant | 0.44 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
eis | 2714366 | p.Val323Leu | missense_variant | 0.2 |
eis | 2715586 | c.-254G>C | upstream_gene_variant | 0.35 |
folC | 2746923 | p.Gly226Ser | missense_variant | 1.0 |
pepQ | 2859381 | c.1038C>G | synonymous_variant | 0.25 |
Rv2752c | 3064552 | p.Arg547Pro | missense_variant | 0.27 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.27 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 1.0 |
fbiB | 3641955 | p.Gly141Arg | missense_variant | 0.25 |
fbiB | 3642734 | c.1200G>C | synonymous_variant | 0.21 |
fbiB | 3642772 | p.Asp413Ala | missense_variant | 0.21 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.24 |
clpC1 | 4039932 | p.Gly258Val | missense_variant | 0.25 |
embC | 4242425 | p.Arg855Gly | missense_variant | 0.2 |
embC | 4242476 | p.Pro872Ala | missense_variant | 0.28 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.38 |
embA | 4243692 | p.Gly154Ser | missense_variant | 1.0 |
embB | 4246904 | p.Val131Met | missense_variant | 1.0 |
ubiA | 4269298 | p.Ile179Thr | missense_variant | 0.98 |
ubiA | 4269529 | p.Ala102Gly | missense_variant | 0.22 |
ethA | 4327672 | c.-199G>A | upstream_gene_variant | 0.3 |
ethA | 4328252 | c.-779T>G | upstream_gene_variant | 0.99 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407758 | p.Ser149Arg | missense_variant | 1.0 |