Run ID: ERR4553749
Sample name:
Date: 01-04-2023 06:19:34
Number of reads: 1662369
Percentage reads mapped: 99.55
Strain:
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1.1.3 | Indo-Oceanic | EAI6 | RD239 | 0.96 |
lineage1.1.3.1 | Indo-Oceanic | NA | RD239 | 0.95 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761095 | p.Leu430Pro | missense_variant | 0.98 | rifampicin |
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 0.67 | isoniazid, ethionamide |
pncA | 2289119 | p.Tyr41* | stop_gained | 1.0 | pyrazinamide |
embB | 4247429 | p.Met306Val | missense_variant | 0.91 | ethambutol |
ethA | 4327054 | p.Tyr140* | stop_gained | 0.96 | ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5117 | c.-123G>A | upstream_gene_variant | 0.5 |
gyrB | 6112 | p.Met291Ile | missense_variant | 0.67 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 0.97 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 0.75 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 0.97 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.34 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.94 |
rpoC | 765171 | p.Pro601Leu | missense_variant | 0.5 |
rpoC | 765230 | p.Ala621Thr | missense_variant | 0.79 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 777572 | c.909C>T | synonymous_variant | 0.96 |
mmpR5 | 779120 | p.Leu44Pro | missense_variant | 0.98 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102054 | p.Pro330Leu | missense_variant | 0.93 |
katG | 2154724 | p.Arg463Leu | missense_variant | 0.94 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2169269 | p.Gln448His | missense_variant | 1.0 |
PPE35 | 2170065 | p.Ala183Gly | missense_variant | 0.18 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
Rv1979c | 2222534 | p.Ala211Thr | missense_variant | 0.98 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 0.92 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 0.96 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.26 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 0.94 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 0.5 |
whiB7 | 3568425 | c.255T>G | synonymous_variant | 0.17 |
alr | 3841253 | c.168C>T | synonymous_variant | 0.84 |
alr | 3841277 | c.144C>T | synonymous_variant | 0.85 |
embC | 4240671 | p.Thr270Ile | missense_variant | 0.96 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243848 | p.Val206Met | missense_variant | 0.98 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.47 |
embB | 4247646 | p.Glu378Ala | missense_variant | 0.69 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 0.86 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 0.91 |
whiB6 | 4338431 | p.Leu31Val | missense_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.9 |
gid | 4407780 | c.423G>A | synonymous_variant | 0.87 |
gid | 4407873 | c.330G>T | synonymous_variant | 0.86 |
gid | 4408098 | c.104dupT | frameshift_variant | 0.97 |
whiB6 | 4338429 | c.-218_92del | frameshift_variant&start_lost | 1.0 |