Run ID: ERR2229532
Sample name:
Date: 31-03-2023 17:17:19
Number of reads: 846718
Percentage reads mapped: 99.4
Strain: lineage4.8
Drug-resistance: Other
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 |
---|---|---|---|---|---|
ethA | 4326419 | c.1054delG | frameshift_variant | 0.12 | ethionamide, ethionamide |
ethA | 4326525 | c.948delC | frameshift_variant | 0.12 | ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6190 | p.Glu317Asp | missense_variant | 0.14 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
rpoC | 766272 | p.Cys968Phe | missense_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776181 | p.Asp767Val | missense_variant | 0.11 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303144 | p.Ser72Ala | missense_variant | 0.33 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474095 | n.438A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475958 | n.2301C>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476364 | n.2707A>T | non_coding_transcript_exon_variant | 0.17 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.13 |
fabG1 | 1674131 | p.Tyr231Phe | missense_variant | 0.17 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2169902 | c.711G>C | synonymous_variant | 0.13 |
PPE35 | 2169910 | p.Asn235Tyr | missense_variant | 0.2 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.46 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.5 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289126 | p.Ala39Glu | missense_variant | 0.14 |
pncA | 2289422 | c.-181C>G | upstream_gene_variant | 0.1 |
eis | 2714720 | p.Lys205Glu | missense_variant | 0.11 |
eis | 2715057 | c.276C>A | synonymous_variant | 0.11 |
folC | 2746317 | p.Asp428Tyr | missense_variant | 0.18 |
folC | 2746737 | p.Asp288Asn | missense_variant | 0.17 |
folC | 2746783 | c.816C>T | synonymous_variant | 0.22 |
pepQ | 2860103 | p.Gly106Arg | missense_variant | 0.18 |
pepQ | 2860147 | p.Gly91Asp | missense_variant | 0.14 |
pepQ | 2860339 | p.Leu27Gln | missense_variant | 0.17 |
Rv2752c | 3066130 | p.Leu21Pro | missense_variant | 0.12 |
Rv2752c | 3067176 | c.-985A>C | upstream_gene_variant | 0.13 |
thyA | 3074579 | c.-108G>A | upstream_gene_variant | 0.13 |
thyA | 3074580 | c.-109T>C | upstream_gene_variant | 0.13 |
fbiD | 3339531 | p.Ser138Arg | missense_variant | 0.15 |
fbiD | 3339542 | p.Asp142Val | missense_variant | 0.14 |
Rv3083 | 3448497 | c.-7T>A | upstream_gene_variant | 1.0 |
clpC1 | 4040144 | c.561G>C | synonymous_variant | 0.25 |
clpC1 | 4040149 | p.Lys186Glu | missense_variant | 0.12 |
clpC1 | 4040241 | p.Thr155Phe | missense_variant | 0.14 |
clpC1 | 4040249 | p.Glu152Gly | missense_variant | 0.15 |
panD | 4044028 | p.Val85Ala | missense_variant | 0.13 |
panD | 4044113 | p.Thr57Ser | missense_variant | 0.22 |
embC | 4242257 | p.Val799Met | missense_variant | 0.11 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4245774 | p.Leu848Met | missense_variant | 0.14 |
embB | 4247968 | c.1455C>A | synonymous_variant | 0.13 |
embB | 4249203 | p.Thr897Ile | missense_variant | 0.11 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |