Run ID: ERR4423637
Sample name:
Date: 01-04-2023 05:56:29
Number of reads: 5769179
Percentage reads mapped: 98.67
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 | 1.0 |
lineage4.6.2.2 | Euro-American (Cameroon) | LAM10-CAM | RD726 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7582 | p.Asp94Ala | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761127 | p.Ser441Gln | missense_variant | 0.98 | rifampicin |
katG | 2155411 | p.Gly234Glu | missense_variant | 0.99 | isoniazid |
ahpC | 2726119 | c.-74G>A | upstream_gene_variant | 0.99 | isoniazid |
embB | 4247431 | p.Met306Ile | missense_variant | 0.99 | ethambutol |
gid | 4408100 | c.102delG | frameshift_variant | 1.0 | streptomycin |
pncA | 2288479 | c.158_*201del | frameshift_variant&stop_lost&splice_region_variant | 1.0 | pyrazinamide |
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 |
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 | 1472028 | n.183A>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472253 | n.408G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1473810 | n.153C>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1474108 | n.451C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474660 | n.1003G>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474762 | n.1105G>T | non_coding_transcript_exon_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2155389 | c.723C>G | synonymous_variant | 0.99 |
Rv1979c | 2221746 | c.1416_1418dupCCG | disruptive_inframe_insertion | 0.93 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289083 | c.159C>T | synonymous_variant | 1.0 |
thyX | 3067474 | p.Pro158Ala | missense_variant | 0.99 |
Rv3083 | 3448567 | p.His22Asp | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612571 | c.546C>T | synonymous_variant | 0.99 |
embA | 4242550 | c.-683C>G | upstream_gene_variant | 0.96 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243190 | c.-43G>C | upstream_gene_variant | 0.98 |
aftB | 4267272 | p.Lys522Arg | missense_variant | 0.99 |
ethR | 4326739 | c.-810G>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 |