Run ID: SRR19428547
Sample name:
Date: 03-04-2023 21:39:46
Number of reads: 961171
Percentage reads mapped: 99.52
Strain: lineage4.3.4.2.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 0.99 |
lineage4.3.4 | Euro-American (LAM) | LAM | RD174 | 0.99 |
lineage4.3.4.2 | Euro-American (LAM) | LAM1;LAM4;LAM11 | RD174 | 1.0 |
lineage4.3.4.2.1 | Euro-American (LAM) | LAM11 | RD174 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6140 | p.Val301Leu | 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 | 763783 | c.414G>T | synonymous_variant | 0.13 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 0.97 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 778078 | p.Thr135Ala | missense_variant | 1.0 |
mmpS5 | 778605 | p.Pro101Ala | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303964 | p.Ala345Gly | missense_variant | 0.93 |
fbiC | 1305494 | c.2565_*55delGGCCTAGCCCCGGCGACGATGCCGGGTCGCGGGATGCGGCCCGTTGAGGAGCGGGGCAATCT | frameshift_variant&stop_lost&splice_region_variant | 0.57 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472340 | n.495C>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1473846 | n.189G>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1473958 | n.301G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475625 | n.1968G>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475783 | n.2126T>A | non_coding_transcript_exon_variant | 0.12 |
rpsA | 1834906 | c.1365G>A | synonymous_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168821 | p.Ala598Pro | missense_variant | 0.12 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.26 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.26 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
Rv2752c | 3064547 | p.Pro549Thr | missense_variant | 0.12 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612009 | p.Ala370Thr | missense_variant | 1.0 |
alr | 3840719 | c.702A>G | synonymous_variant | 1.0 |
rpoA | 3878552 | c.-45C>A | upstream_gene_variant | 0.2 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |
fbiC | 1305494 | c.2565_*56delCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN | frameshift_variant&stop_lost&splice_region_variant | 1.0 |