Run ID: ERR040136
Sample name:
Date: 31-03-2023 08:47:10
Number of reads: 20285072
Percentage reads mapped: 99.01
Strain: lineage3
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage3 | East-African-Indian | CAS | RD750 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761106 | p.Met434Leu | missense_variant | 0.22 | rifampicin |
rpoB | 761110 | p.Asp435Gly | missense_variant | 0.63 | rifampicin |
rpoB | 761139 | p.His445Asn | missense_variant | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
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 |
rpoB | 762249 | p.Leu815Val | missense_variant | 0.19 |
rpoC | 762434 | c.-936T>G | upstream_gene_variant | 1.0 |
rpoC | 762836 | c.-534C>G | upstream_gene_variant | 0.41 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 767305 | p.Tyr1312* | stop_gained | 0.24 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
atpE | 1461019 | c.-26C>A | upstream_gene_variant | 0.28 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472857 | n.1012A>G | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474380 | n.723G>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476408 | n.2751G>C | non_coding_transcript_exon_variant | 0.18 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102891 | p.Phe51Ser | missense_variant | 0.18 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2155682 | p.Ala144Thr | missense_variant | 0.83 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2169866 | c.747G>C | synonymous_variant | 0.35 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 1.0 |
eis | 2714366 | p.Val323Leu | missense_variant | 0.25 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 1.0 |
ribD | 2987307 | p.Ala157Pro | missense_variant | 0.18 |
Rv2752c | 3064741 | p.Gly484Ala | missense_variant | 0.26 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.18 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fbiB | 3641955 | p.Gly141Arg | missense_variant | 0.25 |
fbiB | 3642098 | c.564G>A | synonymous_variant | 1.0 |
fbiB | 3642734 | c.1200G>C | synonymous_variant | 0.22 |
alr | 3840636 | p.Pro262Gln | missense_variant | 1.0 |
rpoA | 3878622 | c.-115C>G | upstream_gene_variant | 1.0 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.2 |
clpC1 | 4039932 | p.Gly258Val | missense_variant | 0.31 |
embC | 4239842 | c.-21C>A | upstream_gene_variant | 0.16 |
embC | 4241056 | c.1194C>G | synonymous_variant | 0.29 |
embC | 4242075 | p.Arg738Gln | missense_variant | 0.99 |
embC | 4242425 | p.Arg855Gly | missense_variant | 0.22 |
embC | 4242476 | p.Pro872Ala | missense_variant | 0.28 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 0.99 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.35 |
embA | 4244375 | c.1143C>G | synonymous_variant | 0.29 |
embA | 4245883 | p.Gly884Asp | missense_variant | 1.0 |
ubiA | 4269529 | p.Ala102Gly | missense_variant | 0.23 |
ethA | 4326230 | p.Asp415Gly | missense_variant | 1.0 |
ethA | 4327672 | c.-199G>A | upstream_gene_variant | 0.21 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |