Run ID: ERR1949966
Sample name:
Date: 31-03-2023 15:35:57
Number of reads: 835993
Percentage reads mapped: 83.31
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 | 7209 | p.Asp657Ala | missense_variant | 0.25 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7906 | p.Phe202Ser | missense_variant | 0.11 |
gyrA | 9506 | c.2205C>T | synonymous_variant | 0.25 |
fgd1 | 491315 | p.Gly178Ala | missense_variant | 0.29 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.17 |
mshA | 576118 | c.771C>T | synonymous_variant | 0.22 |
ccsA | 619828 | c.-63G>T | upstream_gene_variant | 0.17 |
rpoB | 762240 | p.Glu812* | stop_gained | 0.19 |
rpoB | 763093 | p.Val1096Ala | missense_variant | 0.12 |
rpoC | 766865 | p.Thr1166Pro | missense_variant | 0.33 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775737 | p.Leu915Pro | missense_variant | 0.13 |
mmpL5 | 775823 | c.2658G>T | synonymous_variant | 0.2 |
mmpL5 | 776241 | p.Lys747Thr | missense_variant | 0.14 |
mmpL5 | 777028 | p.Thr485Ala | missense_variant | 0.17 |
mmpL5 | 777069 | p.Ala471Gly | missense_variant | 0.14 |
mmpL5 | 777485 | c.996T>C | synonymous_variant | 0.14 |
mmpL5 | 777663 | p.Ala273Val | missense_variant | 0.15 |
mmpL5 | 778206 | p.Met92Thr | missense_variant | 0.11 |
mmpS5 | 778597 | p.Ile103Met | missense_variant | 0.12 |
mmpL5 | 778726 | c.-246T>A | upstream_gene_variant | 0.27 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303153 | p.Arg75Trp | missense_variant | 0.17 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
fbiC | 1304560 | p.Val544Leu | missense_variant | 0.25 |
fbiC | 1304751 | c.1821C>A | synonymous_variant | 0.14 |
Rv1258c | 1406610 | p.Ser244Ile | missense_variant | 0.18 |
Rv1258c | 1406962 | p.Met127Val | missense_variant | 0.18 |
Rv1258c | 1407097 | p.Ser82Ala | missense_variant | 0.38 |
embR | 1417365 | c.-18A>G | upstream_gene_variant | 0.12 |
atpE | 1460882 | c.-163T>A | upstream_gene_variant | 0.29 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471740 | n.-106A>T | upstream_gene_variant | 0.33 |
rrs | 1472584 | n.739A>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472607 | n.762G>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472612 | n.767G>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.23 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474333 | n.676A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474943 | n.1286A>G | non_coding_transcript_exon_variant | 0.22 |
rrl | 1475002 | n.1345A>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1475526 | n.1869C>A | non_coding_transcript_exon_variant | 0.2 |
inhA | 1674244 | p.Ile15Val | missense_variant | 0.12 |
tlyA | 1917756 | c.-184A>G | upstream_gene_variant | 0.11 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918651 | p.Glu238Gln | missense_variant | 0.12 |
ndh | 2101709 | p.Leu445Pro | missense_variant | 0.13 |
ndh | 2102836 | c.207T>C | synonymous_variant | 0.12 |
ndh | 2102936 | p.Ala36Asp | missense_variant | 0.25 |
ndh | 2103064 | c.-22A>C | upstream_gene_variant | 0.2 |
katG | 2154622 | p.Ile497Thr | missense_variant | 0.12 |
katG | 2154671 | p.Ser481Ala | missense_variant | 0.21 |
katG | 2154769 | p.Asp448Ala | missense_variant | 0.32 |
katG | 2156176 | c.-65A>G | upstream_gene_variant | 0.17 |
PPE35 | 2167716 | p.Leu966Ser | missense_variant | 0.17 |
PPE35 | 2167879 | p.Ser912Arg | missense_variant | 0.18 |
PPE35 | 2168228 | c.2385C>A | synonymous_variant | 0.25 |
PPE35 | 2168554 | p.Ile687Phe | missense_variant | 0.38 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2170029 | p.Met195Arg | missense_variant | 0.12 |
PPE35 | 2170492 | p.Ala41Thr | missense_variant | 0.18 |
Rv1979c | 2223010 | p.Val52Ala | missense_variant | 0.11 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
Rv1979c | 2223295 | c.-131A>G | upstream_gene_variant | 0.11 |
pncA | 2289465 | c.-224G>C | upstream_gene_variant | 0.18 |
pncA | 2289540 | c.-299A>G | upstream_gene_variant | 0.22 |
kasA | 2519062 | c.948T>G | synonymous_variant | 0.12 |
eis | 2714976 | p.His119Gln | missense_variant | 0.2 |
ahpC | 2726130 | c.-63A>G | upstream_gene_variant | 0.11 |
folC | 2746391 | p.Val403Glu | missense_variant | 0.33 |
folC | 2746426 | c.1172delT | frameshift_variant | 0.17 |
pepQ | 2859719 | p.Thr234Pro | missense_variant | 0.17 |
pepQ | 2860378 | p.Ile14Thr | missense_variant | 0.11 |
pepQ | 2860594 | c.-176C>A | upstream_gene_variant | 0.22 |
ribD | 2986757 | c.-82C>G | upstream_gene_variant | 0.17 |
Rv2752c | 3064566 | c.1626G>C | synonymous_variant | 0.17 |
thyA | 3073982 | p.Tyr164His | missense_variant | 0.22 |
thyA | 3074103 | c.369C>A | synonymous_variant | 0.14 |
ald | 3087339 | p.Ile174Val | missense_variant | 0.17 |
fbiD | 3339711 | c.594A>C | synonymous_variant | 0.19 |
Rv3083 | 3448307 | c.-197T>G | upstream_gene_variant | 0.23 |
whiB7 | 3568637 | p.Leu15Met | missense_variant | 0.17 |
fbiA | 3640448 | c.-95A>T | upstream_gene_variant | 0.5 |
fbiA | 3641239 | p.Leu233Val | missense_variant | 0.23 |
alr | 3841510 | c.-90A>C | upstream_gene_variant | 0.2 |
alr | 3841514 | c.-94A>G | upstream_gene_variant | 0.2 |
rpoA | 3878329 | p.Leu60Gln | missense_variant | 0.2 |
rpoA | 3878551 | c.-44C>A | upstream_gene_variant | 1.0 |
clpC1 | 4038870 | p.Glu612Val | missense_variant | 1.0 |
clpC1 | 4040522 | p.Ser61Arg | missense_variant | 0.15 |
clpC1 | 4040553 | p.Ser51* | stop_gained | 0.18 |
clpC1 | 4040861 | c.-157T>A | upstream_gene_variant | 0.27 |
panD | 4044315 | c.-34A>G | upstream_gene_variant | 0.11 |
embC | 4240128 | p.Gln89Leu | missense_variant | 0.2 |
embC | 4242308 | p.Thr816Ser | missense_variant | 0.33 |
embC | 4242482 | p.Asn874Asp | missense_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242644 | p.Asn928His | missense_variant | 0.15 |
embC | 4242780 | p.Asn973Ser | missense_variant | 0.11 |
embA | 4244508 | p.Leu426Val | missense_variant | 0.21 |
embA | 4244761 | p.Asn510Ile | missense_variant | 0.17 |
embA | 4244861 | c.1629G>A | synonymous_variant | 0.22 |
embA | 4245250 | p.His673Arg | missense_variant | 0.29 |
embB | 4247901 | p.Leu463Arg | missense_variant | 0.17 |
embB | 4248254 | p.Thr581Ala | missense_variant | 0.11 |
embB | 4249431 | p.Ser973* | stop_gained | 0.1 |
aftB | 4267010 | p.Glu609Asp | missense_variant | 0.18 |
aftB | 4267641 | p.Ala399Val | missense_variant | 0.25 |
aftB | 4268478 | p.Ala120Asp | missense_variant | 0.14 |
aftB | 4268506 | p.Arg111Gly | missense_variant | 0.14 |
aftB | 4268619 | p.Val73Gly | missense_variant | 0.2 |
ubiA | 4269871 | c.-38G>C | upstream_gene_variant | 0.25 |
ethA | 4326163 | c.1311T>C | synonymous_variant | 0.11 |
whiB6 | 4338261 | c.261G>C | synonymous_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448499 | c.-4_*1408del | transcript_ablation | 1.0 |