Run ID: SRR11349189
Sample name:
Date: 02-04-2023 20:55:10
Number of reads: 4047298
Percentage reads mapped: 86.63
Strain: lineage4.1.1
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.1 | Euro-American | T;X;H | None | 1.0 |
lineage4.1.1 | Euro-American (X-type) | X1;X2;X3 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761139 | p.His445Asp | missense_variant | 0.99 | rifampicin |
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.26 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288953 | p.Gly97Cys | missense_variant | 1.0 | pyrazinamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472517 | n.672T>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.19 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472670 | n.825G>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472673 | n.828T>G | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472675 | n.830T>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472677 | n.832C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472692 | n.847T>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472714 | n.869A>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472755 | n.910G>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475898 | n.2241A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475899 | n.2242G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475916 | n.2259C>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475937 | n.2280A>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475943 | n.2286G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475952 | n.2295A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475970 | n.2313C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475975 | n.2318C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475977 | n.2320A>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475978 | n.2321C>T | non_coding_transcript_exon_variant | 0.1 |
rrl | 1475988 | n.2331A>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475997 | n.2340A>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476001 | n.2344T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476153 | n.2496T>C | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476165 | n.2508T>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476194 | n.2537A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476200 | n.2543A>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476201 | n.2544C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476250 | n.2593C>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476251 | n.2594T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476257 | n.2600G>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.48 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.56 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.6 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.55 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.55 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.53 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.51 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.2 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ahpC | 2726210 | c.18T>C | synonymous_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fbiA | 3641447 | p.Thr302Met | missense_variant | 1.0 |
rpoA | 3877553 | p.Glu319Lys | missense_variant | 1.0 |
embC | 4240897 | c.1035C>G | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embB | 4249408 | c.2895G>A | synonymous_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408048 | p.Cys52Tyr | missense_variant | 1.0 |