Run ID: SRR023478
Sample name:
Date: 02-04-2023 14:12:54
Number of reads: 9955113
Percentage reads mapped: 81.68
Strain: lineage4.1.1.3
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 |
lineage4.1 | Euro-American | T;X;H | None | 1.0 |
lineage4.1.1 | Euro-American (X-type) | X1;X2;X3 | None | 1.0 |
lineage4.1.1.3 | Euro-American (X-type) | X1;X3 | RD193 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Trp | missense_variant | 1.0 | rifampicin |
katG | 2154730 | p.Gln461Pro | missense_variant | 1.0 | isoniazid |
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 |
ccsA | 619831 | c.-60T>G | upstream_gene_variant | 0.18 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777299 | c.1182G>C | synonymous_variant | 0.17 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 801247 | p.Arg147Ser | missense_variant | 0.14 |
fbiC | 1304077 | p.Glu383Lys | missense_variant | 0.29 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2155343 | p.Met257Val | missense_variant | 1.0 |
PPE35 | 2170438 | p.Gly59Cys | missense_variant | 0.14 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289017 | c.225T>C | synonymous_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
alr | 3841124 | c.297G>T | synonymous_variant | 0.17 |
rpoA | 3877952 | p.Arg186Cys | missense_variant | 0.98 |
rpoA | 3878641 | c.-135delG | upstream_gene_variant | 0.12 |
panD | 4044480 | c.-199G>A | upstream_gene_variant | 0.22 |
embC | 4242446 | p.Ala862Ser | missense_variant | 0.5 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embB | 4248658 | c.2145G>T | synonymous_variant | 0.33 |
embB | 4249408 | c.2895G>A | synonymous_variant | 1.0 |
ethR | 4327997 | p.Ala150Asp | missense_variant | 0.15 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |