Run ID: SRR16088133
Sample name:
Date: 03-04-2023 16:04:02
Number of reads: 5168461
Percentage reads mapped: 99.51
Strain: lineage4.2.1.1
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.2 | Euro-American | H;T;LAM | None | 1.0 |
lineage4.2.1 | Euro-American (TUR) | H3;H4 | None | 1.0 |
lineage4.2.1.1 | Euro-American (TUR) | H3;H4 | None | 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 |
embB | 4249518 | p.His1002Arg | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6170 | p.His311Tyr | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.21 |
mshA | 576456 | p.Val370Gly | missense_variant | 0.25 |
mshA | 576616 | c.1269G>C | synonymous_variant | 0.26 |
rpoC | 764367 | p.Gly333Ala | missense_variant | 0.23 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777451 | p.Val344Leu | missense_variant | 1.0 |
mmpL5 | 777883 | p.Gly200Arg | missense_variant | 0.14 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
embR | 1416518 | p.Leu277Arg | missense_variant | 0.99 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
fabG1 | 1673553 | p.Asp38Glu | missense_variant | 0.28 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169879 | p.Phe245Cys | missense_variant | 1.0 |
PPE35 | 2170065 | p.Ala183Gly | missense_variant | 0.21 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2519071 | p.Asp319Glu | missense_variant | 0.23 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.24 |
ald | 3086742 | c.-78A>C | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.82 |
fbiD | 3339746 | p.Ala210Gly | missense_variant | 0.23 |
fbiD | 3339751 | p.Ala212Pro | missense_variant | 0.17 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
whiB7 | 3568425 | c.255T>G | synonymous_variant | 0.24 |
whiB7 | 3568431 | c.249C>G | synonymous_variant | 0.22 |
rpoA | 3878590 | c.-83G>C | upstream_gene_variant | 0.23 |
rpoA | 3878597 | c.-90G>C | upstream_gene_variant | 0.5 |
rpoA | 3878613 | c.-106A>C | upstream_gene_variant | 0.25 |
rpoA | 3878637 | c.-130G>C | upstream_gene_variant | 0.4 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.85 |
ddn | 3987092 | p.Glu83Asp | missense_variant | 1.0 |
embC | 4240409 | p.Pro183Ala | missense_variant | 0.36 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4242697 | c.-536G>A | upstream_gene_variant | 1.0 |
embB | 4246527 | p.Ala5Gly | missense_variant | 0.22 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.17 |
embB | 4247016 | p.Ser168Trp | missense_variant | 0.2 |
embB | 4247020 | c.507C>G | synonymous_variant | 0.2 |
embB | 4248328 | c.1815G>C | synonymous_variant | 0.24 |
ethA | 4326328 | p.Tyr382* | stop_gained | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407915 | c.288C>G | synonymous_variant | 0.99 |
gid | 4408213 | c.-11C>T | upstream_gene_variant | 1.0 |