Run ID: SRR671770
Sample name:
Date: 04-04-2023 15:27:21
Number of reads: 5522272
Percentage reads mapped: 99.49
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 | 760314 | p.Val170Phe | missense_variant | 1.0 | rifampicin |
rrs | 1472359 | n.514A>C | non_coding_transcript_exon_variant | 1.0 | streptomycin |
katG | 2154979 | p.Leu378Pro | missense_variant | 1.0 | isoniazid |
pncA | 2289103 | p.Thr47Ala | missense_variant | 0.99 | pyrazinamide |
embB | 4247730 | p.Gly406Ala | 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 | 491564 | p.Ser261Asn | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoB | 762564 | p.Met920Val | missense_variant | 1.0 |
rpoC | 762836 | c.-534C>G | upstream_gene_variant | 0.26 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.98 |
rpoC | 764821 | p.Trp484Cys | missense_variant | 0.99 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | 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 | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 0.99 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 0.99 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2169866 | c.747G>C | synonymous_variant | 0.2 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
eis | 2715120 | c.213G>T | synonymous_variant | 1.0 |
ahpC | 2726121 | c.-72C>T | upstream_gene_variant | 1.0 |
pepQ | 2859381 | c.1038C>G | synonymous_variant | 0.41 |
Rv2752c | 3064552 | p.Arg547Pro | missense_variant | 0.25 |
Rv2752c | 3065129 | c.1063C>T | synonymous_variant | 1.0 |
thyX | 3067426 | p.Val174Met | missense_variant | 1.0 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.23 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448456 | c.-48G>A | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612037 | p.Phe360Leu | missense_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.12 |
embC | 4239842 | c.-21C>A | upstream_gene_variant | 0.11 |
embC | 4242425 | p.Arg855Gly | missense_variant | 0.22 |
embC | 4242476 | p.Pro872Ala | missense_variant | 0.18 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.45 |
embA | 4243460 | c.228C>T | synonymous_variant | 0.99 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
ubiA | 4269125 | p.Ala237Thr | missense_variant | 1.0 |
ubiA | 4269529 | p.Ala102Gly | missense_variant | 0.24 |
ethA | 4326676 | p.Ser266Arg | missense_variant | 1.0 |
whiB6 | 4338594 | c.-73T>G | upstream_gene_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 | 0.99 |