Run ID: ERR1750880
Sample name:
Date: 31-03-2023 14:58:24
Number of reads: 9239802
Percentage reads mapped: 96.5
Strain: lineage4.4.1.1.1
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 |
lineage4.4 | Euro-American | S;T | None | 0.99 |
lineage4.4.1 | Euro-American (S-type) | S;T | None | 1.0 |
lineage4.4.1.1 | Euro-American | S;Orphans | None | 1.0 |
lineage4.4.1.1.1 | Euro-American | S;Orphans | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.99 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 0.99 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289142 | p.Tyr34Asp | missense_variant | 1.0 | pyrazinamide |
embB | 4247429 | p.Met306Val | missense_variant | 1.0 | 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 | 9304 | p.Gly668Asp | missense_variant | 0.99 |
rpoC | 766487 | p.Pro1040Ser | 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 | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472251 | n.406G>A | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474000 | n.343C>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474065 | n.408C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474612 | n.955T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475031 | n.1374G>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475116 | n.1459G>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475341 | n.1684C>G | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475881 | n.2224T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475896 | n.2239A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475897 | n.2240T>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475898 | n.2241A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476115 | n.2458T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476160 | n.2503T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476297 | n.2640C>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476298 | n.2641C>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476309 | n.2652G>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476337 | n.2680C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476382 | n.2725A>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476383 | n.2726T>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476522 | n.2865G>A | non_coding_transcript_exon_variant | 0.13 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102990 | p.Val18Ala | missense_variant | 0.99 |
PPE35 | 2169840 | p.Gly258Asp | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ribD | 2986827 | c.-12G>A | upstream_gene_variant | 1.0 |
Rv2752c | 3064993 | p.Trp400* | stop_gained | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339287 | p.Arg57Leu | missense_variant | 1.0 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 0.98 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 0.99 |
ubiA | 4269671 | p.Val55Leu | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |