Run ID: SRR9971105
Sample name:
Date: 04-04-2023 23:11:38
Number of reads: 4852703
Percentage reads mapped: 81.82
Strain: lineage4.4.1.1
Drug-resistance: XDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.4 | Euro-American | S;T | None | 1.0 |
lineage4.4.1 | Euro-American (S-type) | S;T | None | 1.0 |
lineage4.4.1.1 | Euro-American | S;Orphans | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7570 | p.Ala90Val | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rpsL | 781822 | p.Lys88Arg | missense_variant | 1.0 | streptomycin |
rrl | 1476471 | n.2814G>T | non_coding_transcript_exon_variant | 0.18 | linezolid |
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
inhA | 1674263 | p.Ile21Thr | missense_variant | 1.0 | isoniazid, ethionamide |
eis | 2715369 | c.-37G>T | upstream_gene_variant | 1.0 | kanamycin |
embB | 4248003 | p.Gln497Arg | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6144 | p.His302Arg | 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 |
rpoC | 766485 | p.Val1039Ala | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpR5 | 779267 | p.Phe93Ser | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472675 | n.830T>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476141 | n.2484A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476153 | n.2496T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476194 | n.2537A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476257 | n.2600G>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476336 | n.2679C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476408 | n.2751G>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476413 | n.2756A>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476414 | n.2757T>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476430 | n.2773G>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476433 | n.2776C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.16 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102990 | p.Val18Ala | missense_variant | 1.0 |
katG | 2156117 | c.-6A>G | upstream_gene_variant | 1.0 |
PPE35 | 2169840 | p.Gly258Asp | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2288937 | p.Ala102Val | missense_variant | 1.0 |
Rv2752c | 3066099 | p.Met31Ile | missense_variant | 1.0 |
ald | 3086635 | c.-185_-184insA | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243190 | c.-43G>C | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |