Run ID: ERR8774243
Sample name:
Date: 02-04-2023 08:25:29
Number of reads: 2173627
Percentage reads mapped: 92.46
Strain: lineage4.6.2.2
Drug-resistance: Pre-XDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.6 | Euro-American | T;LAM | None | 0.99 |
lineage4.6.2 | Euro-American | T;LAM | RD726 | 0.99 |
lineage4.6.2.2 | Euro-American (Cameroon) | LAM10-CAM | RD726 | 0.98 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7582 | p.Asp94Gly | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761140 | p.His445Leu | missense_variant | 1.0 | rifampicin |
rpsL | 781822 | p.Lys88Arg | missense_variant | 1.0 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288766 | p.Leu159Arg | missense_variant | 1.0 | pyrazinamide |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
ethA | 4326302 | p.Trp391* | stop_gained | 0.94 | 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 | 8999 | p.Leu566Phe | missense_variant | 0.12 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpR5 | 778298 | c.-692C>T | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472101 | n.256G>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476130 | n.2473G>T | non_coding_transcript_exon_variant | 0.18 |
inhA | 1673406 | c.-796C>T | upstream_gene_variant | 1.0 |
inhA | 1674057 | c.-145C>T | upstream_gene_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2156133 | c.-22A>G | upstream_gene_variant | 0.11 |
Rv1979c | 2221746 | c.1416_1418dupCCG | disruptive_inframe_insertion | 0.93 |
Rv1979c | 2222149 | p.Arg339His | missense_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518194 | p.Pro27Arg | missense_variant | 0.12 |
thyA | 3073754 | p.Glu240Lys | missense_variant | 0.14 |
Rv3083 | 3448567 | p.His22Asp | missense_variant | 1.0 |
Rv3083 | 3449549 | p.Asn349Thr | missense_variant | 0.14 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fbiB | 3641901 | p.Val123Ile | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246554 | p.Arg14Gln | missense_variant | 0.98 |
aftB | 4267272 | p.Lys522Arg | missense_variant | 1.0 |
ethR | 4326739 | c.-810G>C | upstream_gene_variant | 1.0 |
ethA | 4327479 | c.-6G>C | upstream_gene_variant | 1.0 |
ethA | 4328004 | c.-531C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407993 | p.Ser70Arg | missense_variant | 1.0 |