Run ID: ERR2515723
Sample name:
Date: 31-03-2023 21:05:03
Number of reads: 599064
Percentage reads mapped: 99.69
Strain: lineage2.2.1
Drug-resistance: RR-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 | 0.99 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761095 | p.Leu430Pro | missense_variant | 1.0 | rifampicin |
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 |
gyrA | 9549 | p.Val750Leu | missense_variant | 0.11 |
gyrA | 9768 | p.Gly823Arg | missense_variant | 0.13 |
fgd1 | 490992 | c.210G>T | synonymous_variant | 0.12 |
fgd1 | 491200 | c.418C>A | synonymous_variant | 0.11 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
mshA | 576564 | p.Leu406Pro | missense_variant | 0.12 |
mshA | 576587 | p.Gly414* | stop_gained | 0.11 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoB | 761297 | p.Tyr497* | stop_gained | 0.12 |
rpoB | 761793 | p.Thr663Pro | missense_variant | 0.12 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 765549 | p.Ser727Ile | missense_variant | 0.1 |
rpoC | 766843 | c.3474T>A | synonymous_variant | 0.14 |
rpoC | 766927 | c.3558C>T | synonymous_variant | 0.14 |
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 | 779386 | p.Ser133Gly | missense_variant | 0.29 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406252 | p.Gly363Val | missense_variant | 0.14 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472884 | n.1040delT | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474002 | n.345G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476739 | n.3082T>C | non_coding_transcript_exon_variant | 0.14 |
inhA | 1674099 | c.-103G>T | upstream_gene_variant | 0.14 |
inhA | 1674210 | c.9A>C | synonymous_variant | 1.0 |
inhA | 1674476 | p.Val92Ala | missense_variant | 0.13 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2103239 | c.-197T>C | upstream_gene_variant | 0.1 |
katG | 2154538 | p.Gln525Arg | missense_variant | 0.1 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.1 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
eis | 2714657 | p.Tyr226His | missense_variant | 0.12 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339244 | p.Leu43Phe | missense_variant | 0.12 |
Rv3083 | 3448402 | c.-102C>G | upstream_gene_variant | 0.11 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612192 | p.Gly309Trp | missense_variant | 0.11 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
embC | 4241947 | c.2088delT | frameshift_variant | 0.11 |
embA | 4242598 | c.-635T>A | upstream_gene_variant | 0.11 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embA | 4243634 | c.404delG | frameshift_variant | 0.13 |
embA | 4244777 | p.Met515Ile | missense_variant | 0.12 |
embA | 4245443 | c.2211C>T | synonymous_variant | 0.12 |
embB | 4246657 | c.144C>A | synonymous_variant | 0.17 |
embB | 4249333 | c.2820C>T | synonymous_variant | 0.14 |
embB | 4249642 | p.Leu1043Phe | missense_variant | 0.14 |
aftB | 4267507 | p.Asn444Asp | missense_variant | 0.12 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
aftB | 4268892 | c.-56T>C | upstream_gene_variant | 0.14 |
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 |
gid | 4408090 | p.Pro38His | missense_variant | 0.11 |