Run ID: SRR18715097
Sample name:
Date: 03-04-2023 20:18:47
Number of reads: 4197819
Percentage reads mapped: 99.7
Strain: lineage4.3.3
Drug-resistance: Pre-XDR-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 |
lineage4.3.3 | Euro-American (LAM) | LAM;T | RD115 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7582 | p.Asp94Gly | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289231 | p.Leu4Trp | missense_variant | 1.0 | pyrazinamide |
eis | 2715342 | c.-10G>A | upstream_gene_variant | 1.0 | kanamycin |
embB | 4247429 | p.Met306Val | 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 | 8040 | p.Gly247Ser | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576116 | p.Ala257Pro | missense_variant | 0.27 |
mshA | 576119 | p.Ala258Pro | missense_variant | 0.22 |
rpoC | 764918 | p.Val517Leu | missense_variant | 1.0 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rpsA | 1834836 | p.Met432Thr | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168863 | c.1750C>T | synonymous_variant | 1.0 |
PPE35 | 2168891 | c.1722A>C | synonymous_variant | 1.0 |
PPE35 | 2170065 | p.Ala183Gly | missense_variant | 0.24 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 1.0 |
ribD | 2986827 | c.-12G>A | upstream_gene_variant | 1.0 |
Rv2752c | 3067135 | c.-944C>T | upstream_gene_variant | 1.0 |
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 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.42 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4040235 | p.Gly157Ala | missense_variant | 0.22 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4247024 | p.Pro171Ala | missense_variant | 0.17 |
embB | 4248329 | p.Met606Leu | missense_variant | 0.13 |
aftB | 4269615 | c.-779C>T | upstream_gene_variant | 1.0 |
ethA | 4326855 | p.Arg207Cys | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407720 | c.483C>G | synonymous_variant | 0.99 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |