Run ID: ERR2229499
Sample name:
Date: 31-03-2023 17:15:14
Number of reads: 386730
Percentage reads mapped: 99.16
Strain: lineage4
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6920 | p.Val561Leu | missense_variant | 0.25 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 9072 | p.Ala591Ser | missense_variant | 0.17 |
fgd1 | 490932 | p.His50Gln | missense_variant | 0.29 |
fgd1 | 491014 | p.Thr78Pro | missense_variant | 0.22 |
fgd1 | 491683 | p.Val301Leu | missense_variant | 0.4 |
mmpL5 | 775612 | p.Ser957Pro | missense_variant | 0.2 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775915 | p.Ala856Ser | missense_variant | 0.29 |
mmpL5 | 775918 | p.Val855Ile | missense_variant | 0.25 |
mmpL5 | 776003 | c.2478C>T | synonymous_variant | 0.33 |
mmpL5 | 777119 | p.His454Gln | missense_variant | 0.22 |
mmpL5 | 777122 | c.1359C>T | synonymous_variant | 0.25 |
mmpL5 | 777128 | c.1353A>G | synonymous_variant | 0.25 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472710 | n.865A>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
fabG1 | 1673357 | c.-83G>A | upstream_gene_variant | 0.33 |
fabG1 | 1673359 | c.-81T>C | upstream_gene_variant | 0.38 |
fabG1 | 1673361 | c.-79C>G | upstream_gene_variant | 0.33 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.55 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2167735 | p.Pro960Thr | missense_variant | 0.22 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2169278 | c.1335T>C | synonymous_variant | 0.33 |
PPE35 | 2169281 | c.1332T>G | synonymous_variant | 0.33 |
PPE35 | 2169287 | c.1326T>C | synonymous_variant | 0.25 |
PPE35 | 2169338 | c.1275C>T | synonymous_variant | 0.12 |
PPE35 | 2169602 | c.1011C>A | synonymous_variant | 0.13 |
PPE35 | 2169725 | c.888T>C | synonymous_variant | 0.12 |
PPE35 | 2170035 | p.Val193Ala | missense_variant | 0.12 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.73 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.73 |
PPE35 | 2170147 | p.Ser156Ala | missense_variant | 0.13 |
PPE35 | 2170157 | p.Ala152Ser | missense_variant | 0.13 |
PPE35 | 2170238 | c.375T>G | synonymous_variant | 0.18 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289324 | c.-83C>A | upstream_gene_variant | 0.2 |
pncA | 2289429 | c.-188G>T | upstream_gene_variant | 0.5 |
thyX | 3067402 | p.Arg182Ser | missense_variant | 0.29 |
Rv3083 | 3448497 | c.-7T>A | upstream_gene_variant | 1.0 |
fbiB | 3641112 | c.-423T>C | upstream_gene_variant | 0.4 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.27 |
clpC1 | 4039714 | p.Tyr331His | missense_variant | 0.14 |
clpC1 | 4040825 | c.-121G>A | upstream_gene_variant | 0.25 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4245371 | p.Tyr713* | stop_gained | 0.22 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.6 |
embB | 4246656 | p.Pro48Arg | missense_variant | 0.33 |
ubiA | 4269797 | p.Leu13Met | missense_variant | 0.29 |
ethR | 4326961 | c.-588G>C | upstream_gene_variant | 0.5 |
ethR | 4326964 | c.-585G>A | upstream_gene_variant | 0.5 |
ethR | 4326970 | c.-579G>T | upstream_gene_variant | 0.5 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448497 | c.-6_*1408del | transcript_ablation | 1.0 |