Run ID: ERR4815437
Sample name:
Date: 01-04-2023 13:51:46
Number of reads: 262943
Percentage reads mapped: 97.7
Strain: lineage1.1.2
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1.1 | Indo-Oceanic | EAI3;EAI4;EAI5;EAI6 | RD239 | 1.0 |
lineage1.1.2 | Indo-Oceanic | EAI3;EAI5 | RD239 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
inhA | 1674048 | c.-154G>A | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
embB | 4247730 | p.Gly406Asp | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6112 | p.Met291Ile | missense_variant | 1.0 |
gyrB | 6124 | c.885C>T | synonymous_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8452 | p.Ala384Val | missense_variant | 1.0 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9734 | c.2433A>T | synonymous_variant | 0.29 |
fgd1 | 491194 | c.412C>T | synonymous_variant | 0.29 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575498 | p.Ala51Thr | missense_variant | 0.2 |
mshA | 575723 | p.Pro126Ser | missense_variant | 1.0 |
rpoB | 760490 | c.684C>T | synonymous_variant | 1.0 |
rpoC | 762767 | c.-603G>C | upstream_gene_variant | 0.4 |
rpoC | 762806 | c.-564C>A | upstream_gene_variant | 0.25 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763884 | p.Ala172Val | missense_variant | 1.0 |
rpoC | 763886 | c.517C>A | synonymous_variant | 1.0 |
rpoC | 766818 | p.His1150Arg | missense_variant | 0.67 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776395 | p.Phe696Leu | missense_variant | 1.0 |
mmpS5 | 778780 | c.125delA | frameshift_variant | 0.15 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781646 | p.Gln29His | missense_variant | 0.33 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
embR | 1417225 | p.Met41Ile | missense_variant | 1.0 |
rrs | 1472103 | n.258G>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1473637 | n.-21A>G | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2167983 | p.Gly877Asp | missense_variant | 1.0 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
eis | 2714363 | p.Ser324Pro | missense_variant | 0.2 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 1.0 |
ahpC | 2726629 | p.Phe146Ser | missense_variant | 0.33 |
ribD | 2987354 | c.516G>A | synonymous_variant | 0.4 |
Rv2752c | 3065513 | p.Arg227Trp | missense_variant | 0.33 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474597 | c.591C>A | synonymous_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
fbiA | 3641264 | p.Val241Ala | missense_variant | 0.25 |
fbiB | 3642692 | c.1158C>T | synonymous_variant | 0.29 |
clpC1 | 4039742 | c.963C>T | synonymous_variant | 0.17 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4241042 | p.Asn394Asp | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4242907 | c.-326G>A | upstream_gene_variant | 0.5 |
embA | 4243848 | p.Val206Met | missense_variant | 1.0 |
embA | 4245218 | c.1986C>T | synonymous_variant | 1.0 |
embA | 4245969 | p.Pro913Ser | missense_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
embB | 4247947 | p.Leu478Phe | missense_variant | 0.25 |
embB | 4248843 | c.2333delG | frameshift_variant | 0.33 |
aftB | 4267974 | p.Ser288Leu | missense_variant | 1.0 |
ubiA | 4269031 | p.Gly268Asp | missense_variant | 1.0 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
ubiA | 4269831 | c.3G>T | start_lost | 0.33 |
ethA | 4326256 | p.Leu406Phe | missense_variant | 0.12 |
ethA | 4327137 | p.Glu113* | stop_gained | 0.18 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338603 | c.-82C>T | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4407873 | c.330G>T | synonymous_variant | 1.0 |