Run ID: SRR6485026
Sample name:
Date: 04-04-2023 15:02:18
Number of reads: 1176319
Percentage reads mapped: 99.62
Strain: lineage2.2.1
Drug-resistance: HR-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 |
---|---|---|---|---|---|
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
ethA | 4326855 | p.Arg207Gly | missense_variant | 1.0 | ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5489 | p.Ile84Val | missense_variant | 0.12 |
gyrB | 5847 | p.Gly203Val | missense_variant | 0.12 |
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 | 490949 | p.Ser56Phe | missense_variant | 0.12 |
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 | 766645 | p.Glu1092Asp | 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 |
rrs | 1473101 | n.1256C>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476460 | n.2803A>T | non_coding_transcript_exon_variant | 0.29 |
fabG1 | 1673349 | c.-91G>C | upstream_gene_variant | 0.1 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.18 |
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 | 2168052 | p.Val854Ala | missense_variant | 0.15 |
PPE35 | 2169902 | p.Leu237Phe | missense_variant | 0.29 |
PPE35 | 2169910 | p.Asn235Tyr | missense_variant | 0.31 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
folC | 2746660 | c.938delT | frameshift_variant | 0.2 |
Rv2752c | 3064726 | p.Ala489Val | missense_variant | 0.12 |
thyA | 3073715 | p.Pro253Ala | missense_variant | 1.0 |
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 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242756 | p.Ile965Asn | missense_variant | 0.12 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embA | 4244184 | p.Ser318Leu | missense_variant | 0.15 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.4 |
embB | 4248930 | p.Pro806His | missense_variant | 0.11 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
ethA | 4327316 | p.Ile53Thr | missense_variant | 0.22 |
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 |