Run ID: SRR4035542
Sample name:
Date: 04-04-2023 07:09:56
Number of reads: 1070286
Percentage reads mapped: 99.49
Strain: lineage3
Drug-resistance: RR-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 | 761109 | p.Asp435Tyr | missense_variant | 1.0 | rifampicin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8056 | p.Arg252Leu | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575351 | p.Ala2Ser | missense_variant | 0.15 |
mshA | 575366 | p.Asp7Asn | missense_variant | 0.2 |
mshA | 576611 | p.Ala422Thr | missense_variant | 0.18 |
rpoB | 759746 | c.-61C>T | upstream_gene_variant | 0.95 |
rpoC | 762434 | c.-936T>G | upstream_gene_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 766171 | c.2802C>T | synonymous_variant | 0.12 |
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 |
rplC | 800751 | c.-58C>T | upstream_gene_variant | 0.13 |
atpE | 1461137 | c.93C>T | synonymous_variant | 0.15 |
atpE | 1461164 | c.120C>T | synonymous_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rpsA | 1833808 | c.269_270dupTG | frameshift_variant | 0.11 |
rpsA | 1834964 | c.1428delA | frameshift_variant | 0.17 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2155706 | p.Pro136Ser | missense_variant | 0.11 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.2 |
Rv1979c | 2223261 | c.-97A>T | upstream_gene_variant | 0.13 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289047 | c.195C>T | synonymous_variant | 1.0 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 1.0 |
eis | 2714721 | c.612C>T | synonymous_variant | 0.24 |
eis | 2714767 | p.Gly189Val | missense_variant | 0.12 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 1.0 |
thyX | 3067525 | p.Ala141Thr | missense_variant | 0.33 |
thyX | 3068010 | c.-65C>T | upstream_gene_variant | 0.13 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.14 |
thyA | 3074424 | c.48G>T | synonymous_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339688 | p.Thr191Pro | missense_variant | 0.31 |
Rv3083 | 3448979 | p.Phe159Ser | missense_variant | 0.11 |
Rv3083 | 3449166 | c.663G>A | synonymous_variant | 0.18 |
Rv3083 | 3449375 | c.873delG | frameshift_variant | 0.12 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fbiB | 3641955 | p.Gly141Arg | missense_variant | 0.14 |
alr | 3841148 | c.273C>T | synonymous_variant | 0.12 |
rpoA | 3878393 | p.Arg39Cys | missense_variant | 0.19 |
embC | 4242075 | p.Arg738Gln | missense_variant | 1.0 |
embC | 4242425 | p.Arg855Gly | missense_variant | 0.5 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
aftB | 4268069 | c.768C>T | synonymous_variant | 0.13 |
ethA | 4328212 | c.-740delC | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |