Run ID: SRR8651581
Sample name:
Date: 04-04-2023 21:46:23
Number of reads: 6022216
Percentage reads mapped: 85.15
Strain: lineage4.5
Drug-resistance: Pre-XDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.5 | Euro-American | H;T | RD122 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7564 | p.Gly88Ala | missense_variant | 0.99 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
gyrA | 7582 | p.Asp94Ala | missense_variant | 0.98 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
katG | 2155289 | p.Thr275Pro | missense_variant | 1.0 | isoniazid |
ahpC | 2726145 | c.-48G>A | upstream_gene_variant | 1.0 | isoniazid |
embB | 4248002 | p.Gln497Lys | missense_variant | 1.0 | ethambutol |
ethA | 4326665 | c.808dupC | frameshift_variant | 0.68 | ethionamide |
ethA | 4326852 | c.620_621dupGC | frameshift_variant | 0.34 | ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7892 | c.591G>A | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576386 | c.1040dupC | frameshift_variant | 0.99 |
ccsA | 620029 | c.139C>T | synonymous_variant | 0.99 |
rpoB | 761496 | p.Tyr564His | missense_variant | 0.99 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpR5 | 778990 | p.Val1Leu | missense_variant | 0.21 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406101 | p.Pro414Ser | missense_variant | 1.0 |
Rv1258c | 1407363 | c.-23C>T | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473066 | n.1221A>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.11 |
rpsA | 1834165 | c.624A>G | synonymous_variant | 1.0 |
rpsA | 1834338 | p.Asp266Ala | missense_variant | 0.26 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2170568 | p.Ile15Met | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289081 | p.Pro54Arg | missense_variant | 1.0 |
eis | 2715076 | p.Ala86Val | missense_variant | 0.98 |
Rv2752c | 3066155 | c.36dupC | frameshift_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
rpoA | 3878575 | c.-68C>T | upstream_gene_variant | 0.86 |
rpoA | 3878626 | c.-119A>G | upstream_gene_variant | 0.14 |
clpC1 | 4038318 | p.Pro796Leu | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
ubiA | 4269299 | p.Ile179Leu | missense_variant | 0.99 |
ethA | 4326066 | p.Arg470Cys | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |