Run ID: SRR11972371
Sample name:
Date: 03-04-2023 05:39:04
Number of reads: 652458
Percentage reads mapped: 97.86
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 | 7581 | p.Asp94Tyr | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761139 | p.His445Asn | missense_variant | 1.0 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
rrs | 1473246 | n.1401A>G | non_coding_transcript_exon_variant | 1.0 | kanamycin, capreomycin, aminoglycosides, amikacin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
embB | 4248003 | p.Gln497Arg | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5590 | c.351T>C | synonymous_variant | 0.17 |
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 |
ccsA | 620748 | c.858T>G | synonymous_variant | 0.28 |
rpoB | 759615 | c.-192A>C | upstream_gene_variant | 0.25 |
rpoB | 759618 | c.-189T>C | upstream_gene_variant | 0.22 |
rpoB | 761388 | p.Asp528Asn | missense_variant | 0.13 |
rpoB | 761827 | p.His674Arg | missense_variant | 1.0 |
rpoB | 762447 | p.Gly881Ser | missense_variant | 0.2 |
rpoB | 762454 | p.His883Arg | missense_variant | 0.22 |
rpoC | 763031 | c.-339T>C | upstream_gene_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 |
mmpR5 | 779275 | p.Arg96Trp | 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 | 1304903 | p.Glu658Val | missense_variant | 0.14 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
embR | 1416526 | c.822C>G | synonymous_variant | 0.12 |
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 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2169902 | p.Leu237Phe | missense_variant | 0.15 |
PPE35 | 2169910 | p.Asn235Tyr | missense_variant | 0.16 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.21 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.22 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289193 | p.Gly17Cys | missense_variant | 1.0 |
Rv2752c | 3064582 | p.Val537Ala | missense_variant | 0.11 |
Rv2752c | 3067039 | c.-848T>C | upstream_gene_variant | 1.0 |
thyA | 3073733 | p.Val247Ile | missense_variant | 0.11 |
thyA | 3073820 | p.Leu218Met | missense_variant | 0.12 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3086997 | p.Thr60Gly | missense_variant | 0.13 |
fprA | 3473970 | c.-37C>T | upstream_gene_variant | 0.11 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.16 |
clpC1 | 4039526 | c.1179G>C | synonymous_variant | 0.14 |
clpC1 | 4039530 | p.Asp392Ala | missense_variant | 0.13 |
embC | 4240367 | p.Val169Ile | missense_variant | 0.12 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4240843 | c.981C>T | synonymous_variant | 0.12 |
embC | 4240847 | p.Asp329Asn | missense_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embB | 4245794 | c.-720G>T | upstream_gene_variant | 1.0 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
ethA | 4326925 | p.Ser183Arg | 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 |