Run ID: ERR2515220
Sample name:
Date: 31-03-2023 20:49:02
Number of reads: 386058
Percentage reads mapped: 99.66
Strain: lineage4.3.2.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.2 | Euro-American (LAM) | LAM3 | None | 1.0 |
lineage4.3.2.1 | Euro-American (LAM) | LAM3 | RD761 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5520 | p.Pro94Leu | missense_variant | 1.0 |
gyrA | 7222 | c.-80C>T | upstream_gene_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 575752 | c.405G>C | synonymous_variant | 0.12 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 778422 | p.Ala20Val | missense_variant | 0.14 |
mmpS5 | 779597 | c.-693delA | upstream_gene_variant | 0.11 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1304416 | p.Leu496Phe | missense_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472337 | n.492C>T | non_coding_transcript_exon_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918271 | p.Ala111Val | missense_variant | 0.14 |
katG | 2154362 | p.Phe584Leu | missense_variant | 0.11 |
katG | 2156279 | c.-168G>A | upstream_gene_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087652 | p.Ser278* | stop_gained | 0.12 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612164 | p.Val318Gly | missense_variant | 0.11 |
fbiB | 3642602 | c.1068A>G | synonymous_variant | 0.12 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
embC | 4242134 | p.Glu758Lys | missense_variant | 0.13 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.2 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.25 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.25 |
aftB | 4267577 | c.1260C>T | synonymous_variant | 0.11 |
ubiA | 4269833 | c.1A>T | initiator_codon_variant | 0.29 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407533 | p.Ala224Pro | missense_variant | 0.17 |
gid | 4407605 | p.Ala200Thr | missense_variant | 0.11 |
gid | 4407777 | c.426G>A | synonymous_variant | 0.11 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |