Run ID: ERR037486
Sample name:
Date: 31-03-2023 08:33:39
Number of reads: 13341303
Percentage reads mapped: 99.69
Strain: lineage4.3.4.2.1
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 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.4 | Euro-American (LAM) | LAM | RD174 | 1.0 |
lineage4.3.4.2 | Euro-American (LAM) | LAM1;LAM4;LAM11 | RD174 | 1.0 |
lineage4.3.4.2.1 | Euro-American (LAM) | LAM11 | RD174 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rrs | 1472358 | n.513C>T | non_coding_transcript_exon_variant | 1.0 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288820 | p.Gln141Pro | missense_variant | 1.0 | pyrazinamide |
embA | 4243217 | c.-16C>T | upstream_gene_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6140 | p.Val301Leu | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoB | 762714 | p.Val970Met | missense_variant | 1.0 |
rpoC | 762836 | c.-534C>G | upstream_gene_variant | 0.38 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777399 | p.Thr361Arg | missense_variant | 0.2 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 800997 | p.Asn63Lys | missense_variant | 0.26 |
atpE | 1461019 | c.-26C>A | upstream_gene_variant | 0.18 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.19 |
PPE35 | 2169866 | c.747G>C | synonymous_variant | 0.35 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
eis | 2714366 | p.Val323Leu | missense_variant | 0.22 |
ribD | 2987307 | p.Ala157Pro | missense_variant | 0.16 |
Rv2752c | 3064741 | p.Gly484Ala | missense_variant | 0.29 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.19 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612009 | p.Ala370Thr | missense_variant | 0.99 |
fbiB | 3641955 | p.Gly141Arg | missense_variant | 0.21 |
fbiB | 3642772 | p.Asp413Ala | missense_variant | 0.17 |
alr | 3840719 | c.702A>G | synonymous_variant | 1.0 |
rpoA | 3878238 | p.Asp90Glu | missense_variant | 0.19 |
ddn | 3987013 | p.Gly57Ala | missense_variant | 0.24 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.21 |
clpC1 | 4039932 | p.Gly258Val | missense_variant | 0.28 |
embC | 4239842 | c.-21C>A | upstream_gene_variant | 0.16 |
embC | 4241539 | c.1677T>C | synonymous_variant | 1.0 |
embC | 4242425 | p.Arg855Gly | missense_variant | 0.18 |
embC | 4242476 | p.Pro872Ala | missense_variant | 0.23 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.41 |
embB | 4248730 | c.2217C>T | synonymous_variant | 0.99 |
ubiA | 4269529 | p.Ala102Gly | missense_variant | 0.2 |
ethA | 4327229 | p.Leu82Pro | missense_variant | 1.0 |
ethA | 4327672 | c.-199G>A | upstream_gene_variant | 0.2 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |