Run ID: SRR6832163
Sample name:
Date: 04-04-2023 17:15:52
Number of reads: 630805
Percentage reads mapped: 99.58
Strain: lineage2.2
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 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rpsL | 781822 | p.Lys88Arg | missense_variant | 1.0 | streptomycin |
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288718 | p.Met175Thr | missense_variant | 1.0 | pyrazinamide |
embA | 4243221 | c.-12C>T | upstream_gene_variant | 1.0 | ethambutol |
embB | 4247513 | p.Tyr334His | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7279 | c.-23G>A | upstream_gene_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 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
ccsA | 620625 | p.Ile245Met | missense_variant | 0.92 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 764817 | p.Val483Gly | missense_variant | 1.0 |
rpoC | 766645 | p.Glu1092Asp | missense_variant | 1.0 |
rpoC | 767082 | p.Ile1238Asn | missense_variant | 0.25 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 1.0 |
mmpL5 | 776608 | p.Gln625Glu | missense_variant | 0.11 |
mmpL5 | 776922 | p.Ala520Val | missense_variant | 0.17 |
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 | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918073 | p.Ala45Val | missense_variant | 0.33 |
katG | 2154520 | p.Ala531Val | missense_variant | 0.17 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2155883 | p.Thr77Ala | missense_variant | 0.2 |
katG | 2156236 | c.-125C>T | upstream_gene_variant | 0.12 |
katG | 2156494 | c.-383A>G | upstream_gene_variant | 0.18 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518147 | c.33C>T | synonymous_variant | 0.5 |
pepQ | 2859654 | p.Glu255Asp | missense_variant | 0.17 |
Rv2752c | 3065071 | p.Gly374Asp | missense_variant | 0.12 |
Rv2752c | 3067107 | c.-916C>T | upstream_gene_variant | 0.15 |
thyX | 3067507 | p.Leu147Met | missense_variant | 0.2 |
thyA | 3074346 | c.125delT | frameshift_variant | 0.33 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087532 | p.Ala238Asp | missense_variant | 1.0 |
fprA | 3473927 | c.-79delT | upstream_gene_variant | 0.17 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612229 | c.888C>T | synonymous_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
fbiB | 3642681 | p.Ala383Thr | missense_variant | 0.15 |
clpC1 | 4040824 | c.-120C>T | upstream_gene_variant | 0.25 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embB | 4247280 | p.Phe256Ser | missense_variant | 0.25 |
embB | 4247539 | p.His342Gln | missense_variant | 0.25 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407814 | p.Gly130Asp | missense_variant | 0.22 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |