Run ID: ERR8975165
Sample name:
Date: 02-04-2023 08:42:46
Number of reads: 2959097
Percentage reads mapped: 99.6
Strain: lineage4.4.1.1
Drug-resistance: Pre-XDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.4 | Euro-American | S;T | None | 1.0 |
lineage4.4.1.1 | Euro-American | S;Orphans | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7570 | p.Ala90Val | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289179 | c.62delT | frameshift_variant | 1.0 | pyrazinamide, pyrazinamide |
embB | 4247429 | p.Met306Val | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 0.99 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9138 | p.Gln613Glu | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 575552 | p.Asn69Tyr | missense_variant | 0.12 |
mshA | 576047 | p.Arg234* | stop_gained | 0.11 |
rpoB | 761601 | p.Ala599Thr | missense_variant | 0.12 |
rpoC | 764817 | p.Val483Ala | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777416 | c.1065G>T | synonymous_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303929 | c.999G>T | synonymous_variant | 0.22 |
fbiC | 1304089 | p.Asp387Asn | missense_variant | 0.67 |
fbiC | 1305419 | p.Val830Ala | missense_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102990 | p.Val18Ala | missense_variant | 1.0 |
PPE35 | 2167819 | p.Gly932Ser | missense_variant | 1.0 |
PPE35 | 2168479 | p.Thr712Pro | missense_variant | 1.0 |
PPE35 | 2169840 | p.Gly258Asp | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
folC | 2746267 | c.1332C>T | synonymous_variant | 0.14 |
thyX | 3067220 | c.726G>T | synonymous_variant | 0.33 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339194 | p.Leu26Pro | missense_variant | 0.1 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3475306 | p.Gly434Ser | missense_variant | 0.17 |
whiB7 | 3568779 | c.-100T>C | upstream_gene_variant | 1.0 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 1.0 |
fbiB | 3642172 | p.Pro213Leu | missense_variant | 1.0 |
embC | 4241155 | c.1293C>T | synonymous_variant | 0.22 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243990 | p.Ala253Val | missense_variant | 0.2 |
embA | 4244670 | p.Ala480Pro | missense_variant | 0.12 |
embB | 4247798 | p.Thr429Ala | missense_variant | 0.33 |
ubiA | 4270032 | c.-199C>T | upstream_gene_variant | 0.25 |
whiB6 | 4338594 | c.-73T>A | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407714 | p.Lys163Asn | missense_variant | 1.0 |