Run ID: ERR789234
Sample name:
Date: 02-04-2023 06:40:46
Number of reads: 5235454
Percentage reads mapped: 94.03
Strain: lineage2.2.1
Drug-resistance: 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 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7581 | p.Asp94Tyr | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rpsL | 781822 | p.Lys88Arg | missense_variant | 1.0 | streptomycin |
rrl | 1476471 | n.2814G>T | non_coding_transcript_exon_variant | 1.0 | linezolid |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288923 | p.Glu107* | stop_gained | 1.0 | pyrazinamide |
fbiA | 3641066 | p.Arg175His | missense_variant | 1.0 | delamanid |
embB | 4247495 | p.Asp328Tyr | missense_variant | 1.0 | ethambutol |
ethA | 4326426 | c.1047delT | frameshift_variant | 1.0 | ethionamide, ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 7128 | p.Val630Gly | missense_variant | 1.0 |
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 | 576108 | p.Ala254Gly | missense_variant | 0.21 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 764822 | p.Asp485Tyr | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpR5 | 778991 | p.Val1Ala | missense_variant | 1.0 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 0.97 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471872 | n.27T>C | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476467 | n.2810A>C | non_coding_transcript_exon_variant | 1.0 |
inhA | 1674102 | c.-100C>A | upstream_gene_variant | 1.0 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
rpsA | 1834845 | c.1313_1315delCCG | disruptive_inframe_deletion | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.1 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.23 |
thyX | 3067952 | c.-7G>A | upstream_gene_variant | 1.0 |
thyA | 3073861 | p.Gly204Val | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087105 | p.His96Tyr | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
rpoA | 3878490 | c.18C>G | synonymous_variant | 0.24 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243201 | c.-31delC | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.16 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
ethA | 4326676 | p.Ser266Arg | missense_variant | 1.0 |
ethA | 4327503 | c.-30G>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407730 | p.Arg158Leu | missense_variant | 1.0 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |