Run ID: ERR7911352
Sample name:
Date: 02-04-2023 06:57:25
Number of reads: 726690
Percentage reads mapped: 99.71
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 | 761110 | p.Asp435Val | missense_variant | 1.0 | rifampicin |
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 | 2289119 | p.Tyr41* | stop_gained | 1.0 | pyrazinamide |
embB | 4247730 | p.Gly406Asp | missense_variant | 1.0 | ethambutol |
embB | 4249583 | p.Asp1024Asn | 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 |
gyrA | 9620 | c.2319G>A | synonymous_variant | 1.0 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 1.0 |
fgd1 | 491736 | c.954C>A | synonymous_variant | 0.11 |
mshA | 575679 | p.Asn111Ser | missense_variant | 1.0 |
rpoB | 760115 | c.309C>T | synonymous_variant | 1.0 |
rpoC | 763822 | c.455_456delAG | frameshift_variant | 0.14 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpS5 | 778791 | p.Val39Met | missense_variant | 0.11 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1473190 | n.1345G>A | non_coding_transcript_exon_variant | 0.25 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2167993 | p.Thr874Ser | missense_variant | 0.22 |
PPE35 | 2169135 | p.Pro493Leu | missense_variant | 0.15 |
PPE35 | 2169745 | p.Ala290Thr | missense_variant | 0.17 |
Rv1979c | 2222235 | p.Ile310Met | missense_variant | 0.11 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
Rv1979c | 2223343 | c.-179G>A | upstream_gene_variant | 0.12 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 1.0 |
Rv2752c | 3066129 | c.63G>T | synonymous_variant | 0.11 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087460 | p.Arg214Leu | missense_variant | 0.17 |
Rv3083 | 3448860 | c.357G>T | synonymous_variant | 0.12 |
Rv3083 | 3448900 | p.Cys133Ser | missense_variant | 0.12 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
clpC1 | 4038921 | p.Phe595Cys | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
aftB | 4267895 | p.Phe314Leu | missense_variant | 0.33 |
ethA | 4326596 | p.Leu293Ser | missense_variant | 0.1 |
ethA | 4327485 | c.-12T>C | upstream_gene_variant | 1.0 |
whiB6 | 4338286 | c.235delG | frameshift_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338647 | c.-126C>G | upstream_gene_variant | 0.1 |
gid | 4408050 | p.Asn51Lys | missense_variant | 1.0 |