Run ID: ERR4831972
Sample name:
Date: 01-04-2023 21:14:34
Number of reads: 675181
Percentage reads mapped: 99.29
Strain: lineage2.2.1.1
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 1.0 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 1.0 |
lineage2.2.1 | East-Asian (Beijing) | Beijing-RD181 | RD105;RD207;RD181 | 1.0 |
lineage2.2.1.1 | East-Asian (Beijing) | Beijing-RD150 | RD105;RD207;RD181;RD150 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
ethA | 4326452 | p.Ala341Val | missense_variant | 1.0 | ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
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 | 1.0 |
mshA | 575625 | p.Thr93Asn | missense_variant | 0.11 |
mshA | 575907 | p.Ala187Val | missense_variant | 1.0 |
ccsA | 620625 | p.Ile245Met | missense_variant | 1.0 |
rpoB | 762696 | p.Ala964Thr | missense_variant | 0.17 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 1.0 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303425 | c.495G>T | synonymous_variant | 0.13 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472018 | n.173G>T | non_coding_transcript_exon_variant | 0.13 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2103225 | c.-183A>C | upstream_gene_variant | 0.31 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2167985 | p.Met876Ile | missense_variant | 0.12 |
PPE35 | 2169305 | c.1308C>T | synonymous_variant | 0.15 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.12 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289965 | c.-724C>A | upstream_gene_variant | 0.11 |
kasA | 2518313 | p.Pro67Thr | missense_variant | 0.13 |
eis | 2714846 | p.Val163Ile | missense_variant | 1.0 |
folC | 2746745 | p.Val285Gly | missense_variant | 0.18 |
pepQ | 2859456 | c.963G>T | synonymous_variant | 0.13 |
Rv2752c | 3065167 | p.Pro342His | missense_variant | 0.12 |
thyX | 3067310 | c.636C>G | synonymous_variant | 0.17 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087323 | c.504G>A | synonymous_variant | 0.25 |
fbiD | 3339492 | c.375C>A | synonymous_variant | 0.15 |
Rv3083 | 3448557 | c.54G>T | synonymous_variant | 0.18 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474352 | p.Gly116Ser | missense_variant | 0.14 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
Rv3236c | 3613073 | p.Leu15Ser | missense_variant | 0.13 |
rpoA | 3877834 | p.Leu225His | missense_variant | 0.12 |
rpoA | 3878474 | p.Asp12Asn | missense_variant | 0.12 |
clpC1 | 4038166 | p.Ala847Ser | missense_variant | 0.12 |
embC | 4240648 | c.786C>T | synonymous_variant | 0.4 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
embA | 4244212 | p.Pro327His | missense_variant | 0.22 |
embA | 4244395 | p.Gly388Ala | missense_variant | 0.14 |
embA | 4244480 | c.1248G>A | synonymous_variant | 0.15 |
embA | 4244610 | p.Ala460Ser | missense_variant | 0.18 |
embA | 4244990 | c.1758G>T | synonymous_variant | 0.14 |
embB | 4248115 | c.1602C>T | synonymous_variant | 1.0 |
embB | 4249692 | p.Asp1060Gly | missense_variant | 0.13 |
embB | 4249730 | p.Ala1073Ser | missense_variant | 0.15 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
aftB | 4268730 | p.Arg36Leu | missense_variant | 0.17 |
ubiA | 4269302 | p.Leu178Val | missense_variant | 1.0 |
ethA | 4327244 | p.Asp77Gly | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407927 | p.Glu92Asp | missense_variant | 1.0 |