Run ID: ERR9027227
Sample name:
Date: 02-04-2023 09:19:23
Number of reads: 4796390
Percentage reads mapped: 99.53
Strain: lineage4.2.2.2
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 |
lineage4.2 | Euro-American | H;T;LAM | None | 1.0 |
lineage4.2.2 | Euro-American (Ural) | T;LAM7-TUR | None | 1.0 |
lineage4.2.2.2 | Euro-American (Ural) | T;LAM7-TUR | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.99 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
rrs | 1473246 | n.1401A>G | non_coding_transcript_exon_variant | 1.0 | kanamycin, capreomycin, aminoglycosides, amikacin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288920 | p.Gly108Arg | missense_variant | 1.0 | pyrazinamide |
embB | 4247469 | p.Tyr319Ser | 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 | 8688 | p.Ala463Ser | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 490787 | p.Ala2Val | missense_variant | 1.0 |
mshA | 576077 | c.730C>T | synonymous_variant | 1.0 |
rpoC | 766335 | p.Val989Asp | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169041 | c.1572G>A | synonymous_variant | 0.17 |
PPE35 | 2169044 | c.1569G>C | synonymous_variant | 0.57 |
PPE35 | 2169047 | p.Ile522Val | missense_variant | 0.47 |
PPE35 | 2169053 | c.1560T>C | synonymous_variant | 1.0 |
PPE35 | 2169056 | c.1557A>G | synonymous_variant | 0.47 |
PPE35 | 2169059 | c.1554G>A | synonymous_variant | 0.53 |
PPE35 | 2169063 | p.Met517Thr | missense_variant | 1.0 |
PPE35 | 2169065 | p.Ala516Ile | missense_variant | 0.53 |
PPE35 | 2169068 | c.1545G>T | synonymous_variant | 0.56 |
PPE35 | 2169071 | c.1542A>G | synonymous_variant | 0.4 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ahpC | 2726338 | p.Val49Gly | missense_variant | 0.18 |
Rv2752c | 3066280 | c.-89C>T | upstream_gene_variant | 1.0 |
ald | 3086742 | c.-78A>C | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |