Run ID: SRR6650371
Sample name:
Date: 15-08-2023 08:26:37
Number of reads: 3694356
Percentage reads mapped: 99.56
Strain: lineage3
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 |
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 |
mshA | 576618 | p.His424Pro | missense_variant | 0.22 |
mshA | 576723 | p.Val459Gly | missense_variant | 0.23 |
ccsA | 620748 | c.858T>G | synonymous_variant | 0.31 |
rpoB | 759615 | c.-192A>C | upstream_gene_variant | 0.22 |
rpoB | 759746 | c.-61C>T | upstream_gene_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 |
mmpR5 | 779363 | p.Leu125Arg | missense_variant | 0.25 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303016 | p.Val29Gly | missense_variant | 0.43 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472528 | n.683T>G | non_coding_transcript_exon_variant | 0.25 |
rrl | 1473953 | n.296T>G | non_coding_transcript_exon_variant | 0.22 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167855 | p.Phe920Val | missense_variant | 0.24 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2169317 | c.1296C>T | synonymous_variant | 0.17 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.25 |
PPE35 | 2169862 | p.Asn251His | missense_variant | 0.22 |
PPE35 | 2169866 | c.747G>C | synonymous_variant | 0.21 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.14 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.14 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289047 | c.195C>T | synonymous_variant | 1.0 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 1.0 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 1.0 |
ahpC | 2726338 | p.Val49Gly | missense_variant | 0.34 |
ahpC | 2726341 | p.Val50Gly | missense_variant | 0.22 |
ahpC | 2726350 | p.Trp53Leu | missense_variant | 0.14 |
Rv2752c | 3064562 | p.Thr544Pro | missense_variant | 0.24 |
Rv2752c | 3064745 | p.Thr483Pro | missense_variant | 0.34 |
thyX | 3067995 | c.-50A>C | upstream_gene_variant | 0.28 |
thyX | 3068024 | c.-79A>C | upstream_gene_variant | 0.21 |
thyX | 3068031 | c.-86A>C | upstream_gene_variant | 0.23 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473820 | c.-187C>A | upstream_gene_variant | 0.97 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3475280 | p.Val425Gly | missense_variant | 0.24 |
fbiB | 3642751 | p.Asp406Ala | missense_variant | 0.23 |
fbiB | 3642757 | p.Val408Ala | missense_variant | 0.25 |
fbiB | 3642772 | p.Asp413Ala | missense_variant | 0.22 |
ddn | 3986994 | p.Thr51Pro | missense_variant | 0.21 |
ddn | 3986997 | p.Thr52Pro | missense_variant | 0.21 |
clpC1 | 4038250 | p.Thr819Pro | missense_variant | 0.22 |
clpC1 | 4040242 | p.Thr155Pro | missense_variant | 0.24 |
embC | 4239834 | c.-29G>C | upstream_gene_variant | 0.21 |
embC | 4239838 | c.-25T>C | upstream_gene_variant | 0.24 |
embC | 4239973 | c.111T>G | synonymous_variant | 0.23 |
embC | 4240009 | c.147G>A | synonymous_variant | 1.0 |
embC | 4242075 | p.Arg738Gln | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.34 |
embB | 4249305 | p.Asn931Thr | missense_variant | 0.22 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |