Run ID: ERR3340732
Sample name:
Date: 19-10-2023 18:36:45
Number of reads: NA
Percentage reads mapped: NA
Strain: lineage4.3.2.1;lineage2.2.1.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 0.21 |
lineage4 | Euro-American | LAM;T;S;X;H | None | 0.79 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 0.8 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 0.18 |
lineage4.3.2 | Euro-American (LAM) | LAM3 | None | 0.8 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 0.19 |
lineage4.3.2.1 | Euro-American (LAM) | LAM3 | RD761 | 0.82 |
lineage2.2.1.1 | East-Asian (Beijing) | Beijing-RD150 | RD105;RD207;RD181;RD150 | 0.2 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5520 | p.Pro94Leu | missense_variant | 0.83 |
gyrA | 7222 | c.-80C>T | upstream_gene_variant | 0.87 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 0.2 |
mshA | 575907 | p.Ala187Val | missense_variant | 0.18 |
ccsA | 620625 | p.Ile245Met | missense_variant | 0.18 |
rpoB | 760843 | p.Gln346Arg | missense_variant | 0.84 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.19 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 0.84 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 0.23 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 0.16 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 0.22 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 0.15 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472337 | n.492C>T | non_coding_transcript_exon_variant | 0.85 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 0.18 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 0.29 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.19 |
Rv1979c | 2223014 | p.Tyr51Asn | missense_variant | 0.21 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2290107 | c.-866T>A | upstream_gene_variant | 0.79 |
eis | 2714846 | p.Val163Ile | missense_variant | 0.17 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 0.82 |
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 | 0.19 |
fbiB | 3641157 | c.-378C>T | upstream_gene_variant | 0.21 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 0.82 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 0.16 |
embB | 4248115 | c.1602C>T | synonymous_variant | 0.2 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 0.2 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.21 |
gid | 4407927 | p.Glu92Asp | missense_variant | 0.22 |
gid | 4408156 | p.Leu16Arg | missense_variant | 0.85 |