Run ID: ERR4830856
Sample name:
Date: 01-04-2023 20:29:51
Number of reads: 2118127
Percentage reads mapped: 80.01
Strain: lineage4.4.1.1
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 | 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 |
---|---|---|---|---|---|
rpoB | 761277 | p.Ile491Phe | missense_variant | 0.99 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
rrs | 1473247 | n.1402C>A | non_coding_transcript_exon_variant | 0.11 | kanamycin, capreomycin, aminoglycosides, amikacin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289091 | p.His51Asp | missense_variant | 1.0 | pyrazinamide |
embB | 4247431 | p.Met306Ile | 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 | 9138 | p.Gln613Glu | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.35 |
mshA | 576113 | p.Arg256Gly | missense_variant | 0.16 |
rpoC | 764503 | c.1134G>C | synonymous_variant | 0.1 |
rpoC | 764521 | c.1152T>C | synonymous_variant | 0.13 |
rpoC | 764536 | c.1167G>T | synonymous_variant | 0.14 |
rpoC | 764539 | c.1170C>G | synonymous_variant | 0.15 |
rpoC | 764542 | c.1173C>G | synonymous_variant | 0.14 |
rpoC | 764545 | c.1176C>G | synonymous_variant | 0.19 |
rpoC | 764548 | c.1179G>C | synonymous_variant | 0.18 |
rpoC | 764560 | c.1191T>C | synonymous_variant | 0.18 |
rpoC | 764572 | c.1203G>C | synonymous_variant | 0.17 |
rpoC | 764573 | p.Leu402Ile | missense_variant | 0.14 |
rpoC | 764578 | c.1209C>G | synonymous_variant | 0.14 |
rpoC | 764581 | c.1212T>C | synonymous_variant | 0.16 |
rpoC | 764582 | p.Leu405Met | missense_variant | 0.16 |
rpoC | 764611 | c.1242G>C | synonymous_variant | 0.13 |
rpoC | 764632 | c.1263T>C | synonymous_variant | 0.1 |
rpoC | 766467 | p.Glu1033Ala | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777416 | c.1065G>T | synonymous_variant | 1.0 |
mmpR5 | 779426 | p.Met146Thr | 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 | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472686 | n.841G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472714 | n.869A>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1473981 | n.324G>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474068 | n.411T>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474275 | n.618T>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474281 | n.624A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474353 | n.696A>G | non_coding_transcript_exon_variant | 0.1 |
rrl | 1474354 | n.697C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474356 | n.699T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474359 | n.702C>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474362 | n.705A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474381 | n.724T>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474387 | n.730C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474402 | n.745T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474450 | n.793T>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474454 | n.797G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474498 | n.841G>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474626 | n.969T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474627 | n.970G>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474630 | n.973T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474632 | n.975G>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474636 | n.979A>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474637 | n.980C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474638 | n.981C>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474639 | n.982G>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474660 | n.1003G>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1474673 | n.1016T>G | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474676 | n.1019T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474690 | n.1033C>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1474709 | n.1053_1056delTGGT | non_coding_transcript_exon_variant | 0.26 |
rrl | 1474717 | n.1060_1061insGCCAG | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474752 | n.1096delA | non_coding_transcript_exon_variant | 0.27 |
rrl | 1474760 | n.1103A>G | non_coding_transcript_exon_variant | 0.28 |
rrl | 1474777 | n.1120T>C | non_coding_transcript_exon_variant | 0.3 |
rrl | 1474779 | n.1122G>A | non_coding_transcript_exon_variant | 0.24 |
rrl | 1474782 | n.1125G>A | non_coding_transcript_exon_variant | 0.26 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474827 | n.1170C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474831 | n.1174A>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474904 | n.1247G>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474905 | n.1248T>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474913 | n.1256T>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475086 | n.1429C>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475775 | n.2118G>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1475776 | n.2119G>C | non_coding_transcript_exon_variant | 0.23 |
rrl | 1475883 | n.2226A>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475884 | n.2227A>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475896 | n.2239A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475897 | n.2240T>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475898 | n.2241A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475899 | n.2242G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475943 | n.2286G>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475952 | n.2295A>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1475970 | n.2313C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475975 | n.2318C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.26 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.15 |
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 |
kasA | 2518496 | c.382C>T | synonymous_variant | 1.0 |
Rv2752c | 3065023 | p.Pro390Leu | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.56 |
Rv3083 | 3448522 | p.Val7Phe | missense_variant | 1.0 |
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 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4244910 | c.1678C>T | synonymous_variant | 0.11 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |