Run ID: SRR22424884
Sample name:
Date: 04-04-2023 04:15:26
Number of reads: 2494562
Percentage reads mapped: 99.65
Strain: lineage2.2.1
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 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7582 | p.Asp94Gly | 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 |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288920 | p.Gly108Arg | 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 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 764840 | p.Ile491Val | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 1.0 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1304788 | p.Ala620Thr | missense_variant | 1.0 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472379 | n.534T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472382 | n.537G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472389 | n.544G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472400 | n.555C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472422 | n.577T>C | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472434 | n.589_590insC | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472437 | n.592T>C | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472438 | n.594delC | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472446 | n.601T>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472448 | n.603T>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472450 | n.605A>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472451 | n.606C>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472461 | n.616G>C | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472462 | n.617T>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472464 | n.619A>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472466 | n.621C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472471 | n.626G>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472473 | n.628G>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472474 | n.629C>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472476 | n.631A>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472486 | n.641A>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472494 | n.649A>G | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472496 | n.651T>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472498 | n.653C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476719 | n.3062C>T | non_coding_transcript_exon_variant | 0.18 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 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 |
Rv1979c | 2222476 | c.686_688delTGT | disruptive_inframe_deletion | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
thyA | 3074230 | p.Asp81Gly | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448500 | c.-4A>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embA | 4244815 | p.Leu528Pro | missense_variant | 0.11 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
ethA | 4327121 | p.Val118Gly | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |