Run ID: ERR4828847
Sample name:
Date: 01-04-2023 19:07:18
Number of reads: 1200597
Percentage reads mapped: 99.73
Strain: lineage4.8
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 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761139 | p.His445Tyr | missense_variant | 1.0 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
katG | 2154312 | c.1799delA | frameshift_variant | 0.11 | isoniazid |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289089 | c.152dupA | frameshift_variant | 1.0 | pyrazinamide, pyrazinamide |
embB | 4247730 | p.Gly406Asp | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6977 | p.Phe580Leu | missense_variant | 0.13 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 9208 | p.Lys636Thr | missense_variant | 1.0 |
rpoB | 762037 | p.Ile744Thr | missense_variant | 0.11 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776559 | p.Met641Thr | missense_variant | 0.11 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406477 | c.864C>T | synonymous_variant | 0.25 |
atpE | 1461198 | p.Pro52Ser | missense_variant | 0.13 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472888 | n.1043T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1473737 | n.80G>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474073 | n.416G>T | non_coding_transcript_exon_variant | 0.22 |
inhA | 1674219 | c.18C>T | synonymous_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168149 | p.Pro822Ser | missense_variant | 1.0 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.29 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.21 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
Rv2752c | 3066286 | c.-95C>G | upstream_gene_variant | 1.0 |
fprA | 3474895 | p.Asp297Tyr | missense_variant | 0.15 |
Rv3236c | 3612760 | c.356delT | frameshift_variant | 0.12 |
rpoA | 3878349 | c.159C>T | synonymous_variant | 0.13 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.17 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.17 |
aftB | 4267173 | p.Asp555Val | missense_variant | 0.11 |
aftB | 4267639 | p.Thr400Ala | missense_variant | 0.18 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |