Run ID: ERR171167
Sample name:
Date: 31-03-2023 14:57:36
Number of reads: 2749969
Percentage reads mapped: 99.66
Strain: lineage4.3.3;lineage2.2.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 0.39 |
lineage4 | Euro-American | LAM;T;S;X;H | None | 0.64 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 0.61 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 0.38 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 0.39 |
lineage4.3.3 | Euro-American (LAM) | LAM;T | RD115 | 0.6 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 0.98 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8040 | p.Gly247Ser | missense_variant | 0.53 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 0.4 |
mshA | 575907 | p.Ala187Val | missense_variant | 0.29 |
ccsA | 620625 | p.Ile245Met | missense_variant | 0.39 |
rpoB | 760143 | p.Val113Ile | missense_variant | 0.53 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.38 |
rpoC | 764043 | p.Thr225Asn | missense_variant | 0.28 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 0.52 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 0.36 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 0.33 |
mmpL5 | 776689 | p.Trp598Arg | missense_variant | 0.69 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 0.42 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 0.45 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 0.39 |
rpsA | 1834836 | p.Met432Thr | missense_variant | 0.66 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 0.38 |
katG | 2156196 | c.-85C>T | upstream_gene_variant | 0.63 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.36 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2290039 | c.-798C>A | upstream_gene_variant | 0.21 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 0.56 |
folC | 2746340 | p.Ala420Val | missense_variant | 0.52 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.26 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 0.67 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 0.43 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 0.5 |
embC | 4242425 | p.Arg855Gly | missense_variant | 0.23 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 0.46 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 0.41 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.26 |
gid | 4407927 | p.Glu92Asp | missense_variant | 0.36 |
gid | 4408156 | p.Leu16Arg | missense_variant | 0.76 |