Run ID: SRR18714762
Sample name:
Date: 03-04-2023 20:03:07
Number of reads: 2979090
Percentage reads mapped: 99.61
Strain: lineage4.8
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 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
inhA | 1674481 | p.Ser94Ala | missense_variant | 1.0 | isoniazid, ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
mshA | 576606 | p.Ala420Gly | missense_variant | 0.23 |
mshA | 576613 | c.1266A>C | synonymous_variant | 0.62 |
rpoC | 764367 | p.Gly333Ala | missense_variant | 0.18 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 0.99 |
rrl | 1476058 | n.2401T>G | non_coding_transcript_exon_variant | 0.21 |
fabG1 | 1673553 | p.Asp38Glu | missense_variant | 0.19 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2153942 | p.Phe724Val | missense_variant | 1.0 |
PPE35 | 2168149 | p.Pro822Ser | missense_variant | 1.0 |
PPE35 | 2170065 | p.Ala183Gly | missense_variant | 0.34 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.23 |
thyA | 3074422 | p.Pro17Leu | missense_variant | 1.0 |
ald | 3087816 | p.Cys333Gly | missense_variant | 0.17 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.67 |
fbiD | 3339751 | p.Ala212Pro | missense_variant | 0.24 |
Rv3083 | 3448497 | c.-7T>A | upstream_gene_variant | 1.0 |
rpoA | 3878597 | c.-90G>C | upstream_gene_variant | 0.45 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.64 |
clpC1 | 4039729 | p.Asp326Asn | missense_variant | 1.0 |
embC | 4240409 | p.Pro183Ala | missense_variant | 0.25 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246529 | p.Ser6Arg | missense_variant | 0.2 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.12 |
embB | 4247028 | p.Leu172Arg | missense_variant | 0.21 |
embB | 4248328 | c.1815G>C | synonymous_variant | 0.21 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408102 | p.Gly34Glu | missense_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |