Run ID: SRR6982019
Sample name:
Date: 04-04-2023 18:25:00
Number of reads: 607170
Percentage reads mapped: 99.27
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 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
katG | 2154019 | c.2088_2092delGGTCT | frameshift_variant | 0.15 | isoniazid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
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 | 491330 | p.Lys183Met | missense_variant | 0.15 |
fgd1 | 491575 | p.Pro265Ser | missense_variant | 0.11 |
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 |
rpoB | 761986 | p.Asp727Gly | missense_variant | 0.1 |
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 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1302957 | c.27C>A | synonymous_variant | 0.1 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474789 | n.1137delC | non_coding_transcript_exon_variant | 0.12 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 0.94 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102092 | c.951G>A | synonymous_variant | 0.1 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2155161 | c.951C>T | synonymous_variant | 0.5 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.97 |
PPE35 | 2170085 | c.528G>T | synonymous_variant | 0.11 |
PPE35 | 2170111 | p.Phe168Leu | missense_variant | 0.12 |
PPE35 | 2170155 | p.Ala153Asp | missense_variant | 0.17 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2288895 | c.338_346delGCACGCCAC | disruptive_inframe_deletion | 0.61 |
pncA | 2290110 | c.-869C>T | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474957 | c.951G>A | synonymous_variant | 0.11 |
fprA | 3474990 | c.985delA | frameshift_variant | 0.11 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
rpoA | 3878510 | c.-3A>G | upstream_gene_variant | 0.22 |
clpC1 | 4038413 | p.Phe764Leu | missense_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embB | 4246567 | c.54G>T | synonymous_variant | 1.0 |
embB | 4249558 | c.3045A>G | synonymous_variant | 0.11 |
embB | 4249599 | p.Glu1029Val | missense_variant | 0.12 |
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 | 4407927 | p.Glu92Asp | missense_variant | 1.0 |