Run ID: SRR6045997
Sample name:
Date: 20-10-2023 18:16:45
Number of reads: 2542670
Percentage reads mapped: 94.37
Strain: lineage3.1.3
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | ||
Fluoroquinolones | ||
Moxifloxacin | ||
Ofloxacin | ||
Levofloxacin | ||
Ciprofloxacin | ||
Aminoglycosides | ||
Amikacin | ||
Capreomycin | ||
Kanamycin | ||
Cycloserine | ||
Ethionamide | ||
Clofazimine | ||
Para-aminosalicylic_acid | ||
Delamanid | ||
Bedaquiline | ||
Linezolid |
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage3 | East-African-Indian | CAS | RD750 | 1.0 |
lineage3.1.3 | East-African-Indian | CAS | RD750 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
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 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
rpoC | 762434 | c.-936T>G | upstream_gene_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpS5 | 778477 | c.429A>T | stop_lost&splice_region_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471728 | n.-117delT | upstream_gene_variant | 1.0 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.18 |
rpsA | 1834159 | c.618G>A | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
Rv1979c | 2222732 | c.432delT | frameshift_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 1.0 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612918 | p.Val67Leu | missense_variant | 1.0 |
ddn | 3987127 | c.288delC | frameshift_variant | 1.0 |
embC | 4242075 | p.Arg738Gln | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4244557 | p.Arg442Lys | missense_variant | 0.98 |
embB | 4249195 | c.2682C>A | synonymous_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4408175 | p.Ala10Pro | missense_variant | 1.0 |