Run ID: ERR11043168
Sample name:
Date: 31-03-2023 11:29:12
Number of reads: 2080930
Percentage reads mapped: 99.7
Strain: lineage4.8
Drug-resistance: RR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
ddn | 3987107 | p.Trp88* | stop_gained | 1.0 | delamanid |
gid | 4408100 | c.102delG | frameshift_variant | 0.22 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7496 | c.195C>G | synonymous_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.27 |
rpoB | 760742 | c.936G>A | synonymous_variant | 1.0 |
rpoC | 765369 | p.Thr667Met | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781818 | p.Val87Met | missense_variant | 0.13 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154400 | p.Arg571His | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518807 | c.693C>T | synonymous_variant | 1.0 |
rpoA | 3878637 | c.-130G>C | upstream_gene_variant | 0.19 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.65 |
ubiA | 4269364 | p.Tyr157Ser | missense_variant | 0.47 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |