Run ID: SRR9613554
Sample name:
Date: 04-04-2023 22:54:55
Number of reads: 4365169
Percentage reads mapped: 99.99
Strain: lineage4.3.4.2
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 | 0.99 |
lineage4.3.4.2 | Euro-American (LAM) | LAM1;LAM4;LAM11 | RD174 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761139 | p.His445Asp | missense_variant | 1.0 | rifampicin |
katG | 2155689 | p.Leu141Phe | missense_variant | 1.0 | isoniazid |
pncA | 2289162 | p.Leu27Pro | missense_variant | 0.97 | pyrazinamide |
embB | 4247730 | p.Gly406Ala | missense_variant | 0.95 | 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 | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoC | 764300 | p.Gly311Arg | 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 |
rrl | 1475110 | n.1453A>G | non_coding_transcript_exon_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 0.96 |
PPE35 | 2170720 | c.-108A>G | upstream_gene_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518606 | c.492G>C | synonymous_variant | 0.1 |
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 | 1.0 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4038884 | c.1821C>T | synonymous_variant | 1.0 |
clpC1 | 4040066 | c.639G>T | synonymous_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.18 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.17 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.2 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.2 |
embB | 4246563 | p.Leu17Trp | missense_variant | 0.22 |
embB | 4246567 | c.54G>T | synonymous_variant | 0.18 |
embB | 4247143 | p.Phe210Leu | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 0.98 |