Run ID: SRR11972328
Sample name:
Date: 03-04-2023 05:37:18
Number of reads: 2468262
Percentage reads mapped: 98.93
Strain: lineage2.2.1.1
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 | 1.0 |
lineage2.2.1.1 | East-Asian (Beijing) | Beijing-RD150 | RD105;RD207;RD181;RD150 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
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 |
embB | 4248002 | p.Gln497Lys | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6314 | p.Ser359Pro | missense_variant | 0.12 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7669 | p.Pro123Gln | missense_variant | 0.11 |
gyrA | 7749 | p.Val150Ile | missense_variant | 0.11 |
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 | 764817 | p.Val483Ala | 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 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474523 | n.866C>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474553 | n.896T>C | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476560 | n.2903A>G | non_coding_transcript_exon_variant | 0.1 |
fabG1 | 1674056 | p.Ile206Asn | missense_variant | 0.11 |
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 | 0.97 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289619 | c.-378T>A | upstream_gene_variant | 0.12 |
kasA | 2518868 | p.Glu252Lys | missense_variant | 0.15 |
eis | 2714846 | p.Val163Ile | missense_variant | 1.0 |
ribD | 2986709 | c.-130C>T | upstream_gene_variant | 0.14 |
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 |
clpC1 | 4040057 | c.648C>T | synonymous_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embB | 4246133 | c.-381G>A | upstream_gene_variant | 0.14 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.15 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.11 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.12 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.12 |
embB | 4248115 | c.1602C>T | synonymous_variant | 1.0 |
aftB | 4267203 | p.Lys545Arg | missense_variant | 0.1 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
ubiA | 4269591 | p.Asp81Glu | missense_variant | 0.1 |
ubiA | 4270031 | c.-198G>T | upstream_gene_variant | 0.15 |
ethA | 4326036 | p.Phe480Leu | missense_variant | 0.17 |
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 |