Run ID: SRR6832019
Sample name:
Date: 04-04-2023 17:10:29
Number of reads: 550456
Percentage reads mapped: 99.39
Strain: lineage4.2.1.1
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 |
lineage4.2.1 | Euro-American (TUR) | H3;H4 | None | 0.99 |
lineage4.2.1.1 | Euro-American (TUR) | H3;H4 | None | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761139 | p.His445Asn | missense_variant | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
embB | 4248003 | p.Gln497Arg | missense_variant | 1.0 | ethambutol |
gid | 4407851 | c.351delG | frameshift_variant | 1.0 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5312 | p.Ala25Thr | missense_variant | 0.13 |
gyrB | 6642 | p.Lys468Arg | missense_variant | 0.33 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoB | 759615 | c.-192A>C | upstream_gene_variant | 0.5 |
rpoB | 761279 | p.Ile491Met | missense_variant | 1.0 |
rpoB | 761610 | p.Gly602Arg | missense_variant | 0.25 |
rpoC | 765674 | p.Glu769* | stop_gained | 0.17 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776635 | p.Asp616Asn | missense_variant | 0.25 |
mmpL5 | 777451 | p.Val344Leu | missense_variant | 1.0 |
mmpL5 | 778963 | c.-483G>T | upstream_gene_variant | 0.29 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472259 | n.414C>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472439 | n.594C>T | non_coding_transcript_exon_variant | 0.14 |
fabG1 | 1674076 | p.Thr213Pro | missense_variant | 0.38 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169879 | p.Phe245Cys | missense_variant | 0.67 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
Rv1979c | 2223345 | c.-181T>A | upstream_gene_variant | 0.25 |
kasA | 2518698 | p.Cys195Tyr | missense_variant | 0.4 |
ald | 3086742 | c.-78A>C | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3449946 | c.1443C>T | synonymous_variant | 0.15 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
rpoA | 3877809 | p.Glu233Asp | missense_variant | 0.18 |
panD | 4044378 | c.-97G>A | upstream_gene_variant | 0.18 |
embC | 4241141 | p.Ile427Val | missense_variant | 0.2 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4245318 | p.Ile696Leu | missense_variant | 1.0 |
embB | 4246982 | p.Thr157Pro | missense_variant | 0.2 |
ethA | 4326992 | p.Ile161Asn | missense_variant | 0.33 |
ethR | 4327258 | c.-291C>T | upstream_gene_variant | 0.25 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408213 | c.-11C>T | upstream_gene_variant | 1.0 |