Run ID: ERR4811178
Sample name:
Date: 20-10-2023 00:39:36
Number of reads: 7915026
Percentage reads mapped: 96.32
Strain: lineage4.4.2;lineage2.2.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | ||
Fluoroquinolones | ||
Moxifloxacin | ||
Ofloxacin | ||
Levofloxacin | ||
Ciprofloxacin | ||
Aminoglycosides | ||
Amikacin | ||
Capreomycin | ||
Kanamycin | ||
Cycloserine | ||
Ethionamide | ||
Clofazimine | ||
Para-aminosalicylic_acid | ||
Delamanid | ||
Bedaquiline | ||
Linezolid |
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 0.12 |
lineage4 | Euro-American | LAM;T;S;X;H | None | 0.87 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 0.12 |
lineage4.4 | Euro-American | S;T | None | 0.88 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 0.12 |
lineage4.4.2 | Euro-American | T1;T2 | None | 0.88 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
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 | 491742 | c.960T>C | synonymous_variant | 0.1 |
ccsA | 620625 | p.Ile245Met | missense_variant | 0.16 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.12 |
rpoC | 763696 | c.327T>A | synonymous_variant | 0.9 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 0.12 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 0.13 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 0.1 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406441 | c.899delT | frameshift_variant | 0.86 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 0.14 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 0.1 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.11 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
Rv2752c | 3066099 | p.Met31Ile | missense_variant | 0.87 |
Rv2752c | 3066221 | c.-30T>C | upstream_gene_variant | 0.87 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448348 | c.-156G>A | upstream_gene_variant | 0.83 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3475262 | c.1257delG | frameshift_variant | 0.92 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 0.12 |
embB | 4246508 | c.-6G>A | upstream_gene_variant | 0.9 |
embB | 4247249 | p.Gly246Arg | missense_variant | 0.91 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 0.12 |
aftB | 4268928 | c.-92C>T | upstream_gene_variant | 0.9 |
aftB | 4269375 | c.-539G>A | upstream_gene_variant | 0.87 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.15 |
gid | 4407766 | p.Thr146Met | missense_variant | 0.83 |
gid | 4407927 | p.Glu92Asp | missense_variant | 0.12 |