Run ID: ERR2516464
Sample name:
Date: 31-03-2023 21:33:06
Number of reads: 2976269
Percentage reads mapped: 99.57
Strain: lineage4.1.2.1
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 |
lineage4.1 | Euro-American | T;X;H | None | 1.0 |
lineage4.1.2 | Euro-American | T;H | None | 1.0 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761102 | c.1297_1299dupTTC | conservative_inframe_insertion | 1.0 | rifampicin, rifampicin |
rrs | 1473246 | n.1401A>G | non_coding_transcript_exon_variant | 1.0 | kanamycin, capreomycin, aminoglycosides, amikacin |
fabG1 | 1673423 | c.-17G>T | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
katG | 2155030 | c.1081dupG | frameshift_variant | 0.66 | isoniazid |
katG | 2156064 | c.47delC | frameshift_variant | 1.0 | isoniazid |
pncA | 2288835 | c.406delG | frameshift_variant | 1.0 | pyrazinamide, pyrazinamide |
ahpC | 2726141 | c.-52C>T | upstream_gene_variant | 1.0 | isoniazid |
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 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 1.0 |
mshA | 575679 | p.Asn111Ser | missense_variant | 1.0 |
rpoB | 760115 | c.309C>T | synonymous_variant | 1.0 |
rpoC | 765150 | p.Gly594Glu | 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 |
rpsA | 1834212 | p.Ala224Gly | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 1.0 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.22 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.15 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embB | 4247412 | p.Asp300Gly | missense_variant | 1.0 |
ubiA | 4269100 | p.Gly245Val | missense_variant | 0.49 |
ubiA | 4269340 | p.Gly165Val | missense_variant | 1.0 |
ethA | 4326801 | c.670_672dupAAG | conservative_inframe_insertion | 0.98 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 0.96 |
whiB6 | 4338600 | c.-79T>G | upstream_gene_variant | 1.0 |
whiB6 | 4338602 | c.-81A>T | upstream_gene_variant | 1.0 |
gid | 4407902 | p.Leu101Phe | missense_variant | 1.0 |