Run ID: SRR5527176
Sample name:
Date: 18-08-2022 08:38:53
Number of reads: 649849
Percentage reads mapped: 99.63
Strain: lineage2.2.1.1
Drug-resistance: Pre-XDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 1.0 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 1.0 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 1.0 |
lineage2.2.1.1 | East-Asian (Beijing) | Beijing-RD150 | RD105;RD207;RD181;RD150 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7582 | p.Asp94Ala | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761155 | p.Ser450Leu | 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 |
inhA | 1674262 | p.Ile21Val | missense_variant | 1.0 | isoniazid |
pncA | 2288935 | p.Tyr103Asp | missense_variant | 1.0 | pyrazinamide |
embB | 4247429 | p.Met306Val | missense_variant | 1.0 | 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 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763936 | c.567C>A | synonymous_variant | 0.15 |
rpoC | 764817 | p.Val483Gly | missense_variant | 1.0 |
rpoC | 766882 | c.3513C>G | synonymous_variant | 0.11 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1475671 | n.2014A>G | non_coding_transcript_exon_variant | 0.11 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
eis | 2714846 | p.Val163Ile | missense_variant | 1.0 |
ribD | 2987562 | p.His242Asn | missense_variant | 0.12 |
ribD | 2987610 | p.Thr258Ser | missense_variant | 0.11 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiB | 3642052 | p.Leu173Pro | missense_variant | 0.18 |
fbiB | 3642508 | p.Gly325Asp | missense_variant | 0.12 |
embC | 4240844 | p.Tyr328His | missense_variant | 0.1 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 0.92 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embA | 4244140 | p.Pro303Gln | missense_variant | 0.12 |
embA | 4245131 | c.1899G>A | synonymous_variant | 1.0 |
embB | 4248115 | c.1602C>T | synonymous_variant | 1.0 |
ubiA | 4269319 | p.Leu172Pro | missense_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |