Run ID: ERR4800060
Sample name:
Date: 01-04-2023 09:34:01
Number of reads: 3389472
Percentage reads mapped: 99.55
Strain: lineage4.1.2.1
Drug-resistance: XDR-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 | 0.99 |
lineage4.1.2 | Euro-American | T;H | None | 0.99 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 0.98 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7570 | p.Ala90Val | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761139 | p.His445Tyr | missense_variant | 1.0 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 0.98 | streptomycin |
rrl | 1476471 | n.2814G>T | non_coding_transcript_exon_variant | 0.97 | linezolid |
fabG1 | 1673432 | c.-8T>A | upstream_gene_variant | 0.98 | isoniazid |
katG | 2155168 | p.Ser315Thr | missense_variant | 0.99 | isoniazid |
pncA | 2289216 | p.Val9Gly | missense_variant | 1.0 | pyrazinamide |
eis | 2715342 | c.-10G>A | upstream_gene_variant | 0.99 | kanamycin |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 0.99 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 0.98 |
mshA | 575679 | p.Asn111Ser | missense_variant | 0.98 |
rpoB | 760115 | c.309C>T | synonymous_variant | 1.0 |
rpoC | 764585 | p.Leu406Phe | missense_variant | 0.99 |
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 |
embR | 1417213 | p.Asn45Lys | missense_variant | 0.99 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1475927 | n.2270G>T | non_coding_transcript_exon_variant | 1.0 |
rpsA | 1834919 | c.1379dupC | frameshift_variant | 0.99 |
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 |
folC | 2746923 | p.Gly226Arg | missense_variant | 0.99 |
folC | 2747481 | p.Glu40Lys | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 0.99 |
alr | 3840259 | p.Tyr388Asp | missense_variant | 0.98 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.97 |
alr | 3841568 | c.-148G>A | upstream_gene_variant | 0.9 |
alr | 3841570 | c.-151delA | upstream_gene_variant | 0.9 |
alr | 3841574 | c.-154T>G | upstream_gene_variant | 0.9 |
alr | 3841578 | c.-158G>T | upstream_gene_variant | 0.9 |
alr | 3841582 | c.-162A>G | upstream_gene_variant | 0.9 |
alr | 3841584 | c.-164C>A | upstream_gene_variant | 0.9 |
alr | 3841589 | c.-170delG | upstream_gene_variant | 0.95 |
alr | 3841612 | c.-193_-192insC | upstream_gene_variant | 0.93 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
ethA | 4326339 | p.Asn379His | missense_variant | 0.99 |
whiB6 | 4338426 | c.96C>T | synonymous_variant | 0.98 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |