Run ID: ERR2515421
Sample name:
Date: 31-03-2023 20:55:43
Number of reads: 378845
Percentage reads mapped: 99.6
Strain: lineage4.1.2.1
Drug-resistance: Other
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 | 0.98 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7570 | p.Ala90Val | missense_variant | 0.1 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5879 | p.Thr214Ala | missense_variant | 0.14 |
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 | 491414 | p.Val211Ala | missense_variant | 0.11 |
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 |
rpoB | 760757 | p.His317Gln | missense_variant | 0.11 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776340 | p.His714Arg | missense_variant | 0.11 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 800679 | c.-130T>C | upstream_gene_variant | 0.11 |
embR | 1417226 | c.121delA | frameshift_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1475667 | n.2013delT | non_coding_transcript_exon_variant | 0.13 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102592 | c.449_450delGC | frameshift_variant | 0.12 |
katG | 2155459 | p.Asn218Ser | missense_variant | 0.11 |
PPE35 | 2170758 | c.-146A>G | upstream_gene_variant | 0.18 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289558 | c.-317C>T | upstream_gene_variant | 0.14 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 1.0 |
pepQ | 2859368 | p.Met351Val | missense_variant | 0.11 |
thyA | 3074670 | c.-199T>A | upstream_gene_variant | 0.12 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087578 | c.759A>G | synonymous_variant | 0.13 |
ald | 3087849 | p.Ser344Pro | missense_variant | 0.14 |
Rv3083 | 3449291 | p.Lys263Met | missense_variant | 1.0 |
Rv3083 | 3449373 | c.870C>T | synonymous_variant | 0.1 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474773 | p.Ala256Glu | missense_variant | 0.11 |
fprA | 3475346 | p.Leu447Pro | missense_variant | 0.12 |
ddn | 3986742 | c.-102G>A | upstream_gene_variant | 0.11 |
panD | 4044353 | c.-72A>G | upstream_gene_variant | 0.12 |
embC | 4241823 | p.Phe654Ser | missense_variant | 0.17 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embC | 4242885 | p.Lys1008Arg | missense_variant | 0.1 |
embB | 4248565 | c.2052C>T | synonymous_variant | 0.12 |
embB | 4249317 | p.Ala935Val | missense_variant | 0.14 |
embB | 4249549 | c.3036C>T | synonymous_variant | 0.15 |
aftB | 4267778 | c.1059T>C | synonymous_variant | 0.22 |
ubiA | 4269946 | c.-113G>A | upstream_gene_variant | 0.17 |
whiB6 | 4338571 | c.-50G>A | upstream_gene_variant | 0.15 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338618 | c.-97A>G | upstream_gene_variant | 0.12 |
gid | 4407984 | c.219G>C | synonymous_variant | 0.13 |
gid | 4408423 | c.-221G>T | upstream_gene_variant | 0.11 |