Run ID: SRR1049042
Sample name:
Date: 02-04-2023 17:52:38
Number of reads: 2387210
Percentage reads mapped: 99.1
Strain: lineage4.4.2
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 |
lineage4.4 | Euro-American | S;T | None | 1.0 |
lineage4.4.2 | Euro-American | T1;T2 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761128 | p.Ser441Trp | missense_variant | 1.0 | rifampicin |
rrs | 1473246 | n.1401A>G | non_coding_transcript_exon_variant | 1.0 | kanamycin, capreomycin, aminoglycosides, amikacin |
pncA | 2288868 | p.Val125Asp | missense_variant | 1.0 | pyrazinamide |
ahpC | 2726145 | c.-48G>A | upstream_gene_variant | 1.0 | isoniazid |
embB | 4247431 | p.Met306Ile | missense_variant | 0.98 | ethambutol |
ethA | 4327084 | c.380_389dupGCGCCCTCAC | frameshift_variant | 1.0 | ethionamide |
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 |
rpoB | 761817 | p.Arg671Gly | missense_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 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
Rv2752c | 3066099 | p.Met31Ile | missense_variant | 1.0 |
thyX | 3067954 | c.-9G>A | upstream_gene_variant | 1.0 |
thyA | 3074186 | c.285dupT | frameshift_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448348 | c.-156G>A | upstream_gene_variant | 0.98 |
Rv3083 | 3449656 | p.Ala385Ser | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246508 | c.-6G>A | upstream_gene_variant | 1.0 |
aftB | 4268928 | c.-92C>T | upstream_gene_variant | 1.0 |
ubiA | 4269296 | p.Met180Val | missense_variant | 1.0 |
aftB | 4269375 | c.-539G>A | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408099 | p.Leu35Arg | missense_variant | 0.96 |
gid | 4408366 | c.-164C>T | upstream_gene_variant | 0.98 |
katG | 2153435 | c.1120_*453del | stop_lost&conservative_inframe_deletion&splice_region_variant | 1.0 |
thyA | 3071514 | c.365_*2165del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |