Run ID: ERR2229607
Sample name:
Date: 31-03-2023 17:21:18
Number of reads: 919334
Percentage reads mapped: 99.22
Strain: lineage4.8
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
katG | 2155109 | p.Ile335Val | missense_variant | 0.12 | isoniazid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
fgd1 | 491004 | c.222G>T | synonymous_variant | 0.17 |
mshA | 575484 | p.Arg46Leu | missense_variant | 0.14 |
mshA | 576524 | p.His393Asn | missense_variant | 0.18 |
ccsA | 620173 | p.Val95Ile | missense_variant | 0.15 |
rpoB | 761152 | p.Leu449Gln | missense_variant | 0.2 |
mmpL5 | 775625 | p.Trp952Cys | missense_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777307 | p.Pro392Ser | missense_variant | 0.17 |
mmpL5 | 777637 | p.Ile282Val | missense_variant | 0.11 |
mmpL5 | 777647 | c.834C>G | synonymous_variant | 0.11 |
mmpL5 | 777877 | p.Arg202Ser | missense_variant | 0.15 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 801103 | p.Gln99* | stop_gained | 0.14 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
fbiC | 1304018 | p.Asp363Gly | missense_variant | 0.2 |
Rv1258c | 1407078 | p.Gly88Ala | missense_variant | 0.11 |
embR | 1416982 | c.366C>T | synonymous_variant | 0.18 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1473102 | n.1257C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1475382 | n.1725A>G | non_coding_transcript_exon_variant | 0.14 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.14 |
rpsA | 1834418 | p.Ile293Val | missense_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1917984 | c.45C>A | synonymous_variant | 0.12 |
katG | 2154640 | p.Gly491Ala | missense_variant | 0.11 |
katG | 2155313 | p.Val267Ile | missense_variant | 0.14 |
PPE35 | 2168219 | c.2394G>T | synonymous_variant | 0.13 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2169400 | p.Gly405Cys | missense_variant | 0.15 |
PPE35 | 2169602 | c.1011C>A | synonymous_variant | 0.19 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.58 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.6 |
PPE35 | 2170392 | p.Gly74Ala | missense_variant | 0.14 |
PPE35 | 2170400 | c.213G>C | synonymous_variant | 0.14 |
Rv1979c | 2222696 | p.Arg157Trp | missense_variant | 0.25 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2517968 | c.-147T>C | upstream_gene_variant | 0.17 |
kasA | 2518271 | p.Lys53* | stop_gained | 0.15 |
kasA | 2518783 | c.669T>C | synonymous_variant | 0.13 |
kasA | 2518787 | p.Arg225Trp | missense_variant | 0.13 |
kasA | 2518790 | p.Ala226Ser | missense_variant | 0.14 |
eis | 2714850 | c.483C>T | synonymous_variant | 0.13 |
folC | 2747085 | p.Val172Leu | missense_variant | 0.14 |
folC | 2747290 | c.309A>T | synonymous_variant | 0.13 |
pepQ | 2860271 | p.Arg50Ser | missense_variant | 0.12 |
ribD | 2987306 | c.468C>A | synonymous_variant | 0.14 |
Rv2752c | 3064960 | p.Ala411Val | missense_variant | 0.12 |
Rv2752c | 3065111 | p.Arg361Gly | missense_variant | 0.14 |
Rv2752c | 3065687 | p.Gly169Arg | missense_variant | 0.18 |
Rv2752c | 3065742 | c.450T>C | synonymous_variant | 0.15 |
Rv2752c | 3067119 | c.-928C>A | upstream_gene_variant | 0.11 |
fbiD | 3339591 | c.474G>T | synonymous_variant | 0.16 |
Rv3236c | 3612588 | p.Ser177Gly | missense_variant | 0.14 |
fbiB | 3641867 | c.333C>A | synonymous_variant | 0.14 |
alr | 3840521 | c.900C>A | synonymous_variant | 0.13 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.19 |
rpoA | 3877764 | c.744C>A | synonymous_variant | 0.13 |
rpoA | 3877850 | p.Gly220Arg | missense_variant | 0.11 |
clpC1 | 4039730 | c.975C>G | synonymous_variant | 0.14 |
embC | 4240170 | p.Thr103Lys | missense_variant | 0.12 |
embC | 4241569 | c.1707C>T | synonymous_variant | 0.13 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4242922 | c.-311C>A | upstream_gene_variant | 0.18 |
embA | 4242967 | c.-266C>A | upstream_gene_variant | 0.13 |
embA | 4244895 | p.Thr555Pro | missense_variant | 0.22 |
embA | 4245795 | p.Ala855Thr | missense_variant | 0.22 |
embB | 4246103 | c.-411C>T | upstream_gene_variant | 0.15 |
embB | 4248052 | c.1539G>T | synonymous_variant | 0.11 |
aftB | 4268172 | p.Val222Glu | missense_variant | 0.12 |
ubiA | 4269906 | c.-73G>T | upstream_gene_variant | 0.18 |
ethA | 4326554 | p.His307Arg | missense_variant | 0.11 |
ethR | 4326961 | c.-588G>C | upstream_gene_variant | 0.12 |
ethR | 4327960 | p.Trp138Arg | missense_variant | 0.17 |
whiB6 | 4338261 | c.261G>C | synonymous_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448497 | c.-6_*1408del | transcript_ablation | 1.0 |