Run ID: ERR4832044
Sample name:
Date: 01-04-2023 21:17:23
Number of reads: 1084783
Percentage reads mapped: 93.0
Strain: lineage2.2.1
Drug-resistance: MDR-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 | 0.98 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761139 | p.His445Tyr | missense_variant | 0.94 | rifampicin |
rrs | 1472359 | n.514A>C | non_coding_transcript_exon_variant | 1.0 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288841 | p.Ala134Val | missense_variant | 1.0 | pyrazinamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 7107 | p.Glu623Gly | missense_variant | 0.11 |
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 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 766203 | p.Gly945Asp | missense_variant | 0.52 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 0.94 |
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 | 0.95 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471997 | n.152T>C | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472214 | n.369C>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472235 | n.390G>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472242 | n.397C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472873 | n.1028C>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473378 | n.1533T>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1473615 | n.-43G>A | upstream_gene_variant | 0.4 |
rrl | 1473949 | n.292C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1474784 | n.1127C>A | non_coding_transcript_exon_variant | 0.33 |
rrl | 1474872 | n.1215A>G | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475123 | n.1466C>A | non_coding_transcript_exon_variant | 0.4 |
rrl | 1475151 | n.1494C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1475511 | n.1854G>A | non_coding_transcript_exon_variant | 0.4 |
rrl | 1475975 | n.2318C>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476620 | n.2963A>G | non_coding_transcript_exon_variant | 0.22 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 0.98 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 0.97 |
PPE35 | 2167817 | c.2796C>T | synonymous_variant | 0.11 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2169689 | c.924C>A | synonymous_variant | 0.18 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ahpC | 2726088 | c.-105G>A | upstream_gene_variant | 1.0 |
Rv2752c | 3064594 | c.1597delG | frameshift_variant | 0.6 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
fbiB | 3642655 | p.Thr374Lys | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
ethA | 4326676 | p.Ser266Arg | missense_variant | 1.0 |
ethA | 4327100 | p.Thr125Met | 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 |