Run ID: ERR9786640
Sample name:
Date: 02-04-2023 12:37:15
Number of reads: 1630901
Percentage reads mapped: 99.53
Strain: lineage4.3.2;lineage4.1.2.1;lineage2.2.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 0.24 |
lineage4 | Euro-American | LAM;T;S;X;H | None | 0.74 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 0.05 |
lineage4.1 | Euro-American | T;X;H | None | 0.64 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 0.23 |
lineage4.3.2 | Euro-American (LAM) | LAM3 | None | 0.06 |
lineage4.1.2 | Euro-American | T;H | None | 0.65 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 0.24 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 0.58 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7595 | c.294C>G | synonymous_variant | 0.77 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 0.62 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 0.32 |
mshA | 575679 | p.Asn111Ser | missense_variant | 0.64 |
ccsA | 620625 | p.Ile245Met | missense_variant | 0.34 |
rpoB | 760115 | c.309C>T | synonymous_variant | 0.64 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.3 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 0.79 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 0.27 |
mmpL5 | 778061 | p.Gln140His | missense_variant | 0.13 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 0.31 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 0.3 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472076 | n.231G>T | non_coding_transcript_exon_variant | 0.73 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 0.34 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 0.21 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.23 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 0.44 |
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 | 0.27 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 0.13 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 0.65 |
embA | 4243460 | c.228C>T | synonymous_variant | 0.24 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 0.35 |
ethA | 4326676 | p.Ser266Arg | missense_variant | 0.37 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.21 |
gid | 4407927 | p.Glu92Asp | missense_variant | 0.12 |