Run ID: ERR5865106
Sample name:
Date: 01-04-2023 23:48:08
Number of reads: 3594477
Percentage reads mapped: 94.74
Strain: lineage4.2.1
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 |
lineage4.2 | Euro-American | H;T;LAM | None | 1.0 |
lineage4.2.1 | Euro-American (TUR) | H3;H4 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.99 | rifampicin |
rrs | 1472644 | n.799C>T | non_coding_transcript_exon_variant | 0.12 | streptomycin |
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
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 |
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 | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472558 | n.713G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472569 | n.724G>A | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472584 | n.739A>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472607 | n.762G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472655 | n.810G>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472660 | n.815T>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472973 | n.1128A>G | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472987 | n.1142G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472989 | n.1144G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473290 | n.1445C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473301 | n.1456T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473315 | n.1470T>C | non_coding_transcript_exon_variant | 0.1 |
rrl | 1475722 | n.2065G>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475753 | n.2096C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475757 | n.2100_2101insG | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475760 | n.2105_2106delGC | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475764 | n.2107A>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475765 | n.2108A>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475769 | n.2112_2113insC | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475869 | n.2212C>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475881 | n.2224T>C | non_coding_transcript_exon_variant | 0.16 |
rrl | 1475883 | n.2226A>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475898 | n.2241A>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475899 | n.2242G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475916 | n.2259C>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475937 | n.2280A>T | non_coding_transcript_exon_variant | 0.1 |
rrl | 1475943 | n.2286G>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475952 | n.2295A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475963 | n.2306G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475970 | n.2313C>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475977 | n.2320A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476429 | n.2772A>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.1 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169879 | p.Phe245Cys | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2517966 | c.-149G>A | upstream_gene_variant | 1.0 |
ald | 3086742 | c.-78A>C | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
rpoA | 3877949 | p.Thr187Ala | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4249594 | c.3081G>A | synonymous_variant | 1.0 |
aftB | 4268137 | c.700C>T | synonymous_variant | 1.0 |
ethA | 4328376 | c.-903G>C | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408075 | c.127delA | frameshift_variant | 1.0 |