Run ID: ERR1873459
Sample name:
Date: 15-08-2022 11:09:26
Number of reads: 2213859
Percentage reads mapped: 79.59
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 | Euro-American (S-type) | 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 | 7581 | p.Asp94Tyr | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
inhA | 1674481 | p.Ser94Ala | missense_variant | 1.0 | isoniazid, ethionamide |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289213 | p.Gln10Pro | missense_variant | 1.0 | pyrazinamide |
eis | 2715344 | c.-12C>T | upstream_gene_variant | 0.98 | kanamycin |
embB | 4248003 | p.Gln497Arg | missense_variant | 0.98 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9138 | p.Gln613Glu | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoC | 764936 | p.Gln523Glu | 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 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472374 | n.529T>G | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472382 | n.537G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472389 | n.544G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472390 | n.545T>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472391 | n.546C>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472412 | n.567A>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472415 | n.570T>G | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472754 | n.909G>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472936 | n.1091C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472958 | n.1113A>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472959 | n.1114T>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472963 | n.1118G>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472982 | n.1137G>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472987 | n.1142G>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473004 | n.1159T>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473008 | n.1163C>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473009 | n.1164T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475954 | n.2297A>C | non_coding_transcript_exon_variant | 0.98 |
rrl | 1476336 | n.2679C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476356 | n.2699C>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476357 | n.2700T>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476383 | n.2726T>G | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476384 | n.2727G>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476442 | n.2785T>A | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476443 | n.2786G>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476455 | n.2798C>A | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476456 | n.2799A>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.17 |
rpsA | 1833585 | p.Asp15Gly | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102990 | p.Val18Ala | 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 |
ribD | 2987307 | p.Ala157Pro | missense_variant | 0.15 |
Rv2752c | 3065039 | p.Tyr385Asp | missense_variant | 1.0 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.39 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339153 | p.Leu12Phe | missense_variant | 0.17 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
whiB7 | 3568779 | c.-100T>C | upstream_gene_variant | 1.0 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 1.0 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.19 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.26 |
embC | 4239842 | c.-21C>A | upstream_gene_variant | 0.2 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.28 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407790 | p.Ala138Glu | missense_variant | 1.0 |