Run ID: SRR18715349
Sample name:
Date: 03-04-2023 20:30:20
Number of reads: 3319438
Percentage reads mapped: 99.6
Strain: lineage4.1.2.1
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 |
lineage4.1 | Euro-American | T;X;H | None | 1.0 |
lineage4.1.2 | Euro-American | T;H | None | 0.96 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | 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 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 0.99 |
mshA | 575679 | p.Asn111Ser | missense_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.22 |
rpoB | 760115 | c.309C>T | synonymous_variant | 1.0 |
rpoC | 764942 | p.His525Asn | missense_variant | 1.0 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
embR | 1416920 | p.Arg143Thr | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918164 | c.225G>A | synonymous_variant | 1.0 |
PPE35 | 2169902 | c.711G>C | synonymous_variant | 0.11 |
PPE35 | 2170065 | p.Ala183Gly | missense_variant | 0.28 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 0.99 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.55 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.13 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.37 |
embC | 4240409 | p.Pro183Ala | missense_variant | 0.22 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.17 |
embB | 4248324 | p.Ala604Gly | missense_variant | 0.2 |
aftB | 4268441 | c.396C>T | synonymous_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |