Run ID: ERR6336802
Sample name:
Date: 02-04-2023 02:03:57
Number of reads: 623876
Percentage reads mapped: 99.32
Strain: lineage1.2.1.2
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage1 | Indo-Oceanic | EAI | RD239 | 1.0 |
lineage1.2.1 | Indo-Oceanic | EAI2 | RD239 | 1.0 |
lineage1.2.1.2 | Indo-Oceanic | NA | RD239 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
ethA | 4327363 | c.110delA | frameshift_variant | 0.2 | ethionamide, ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5133 | c.-107A>C | upstream_gene_variant | 0.13 |
gyrB | 6112 | p.Met291Ile | missense_variant | 1.0 |
gyrB | 6459 | p.Val407Glu | missense_variant | 0.14 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7751 | c.450C>T | synonymous_variant | 0.12 |
gyrA | 8228 | c.927G>A | synonymous_variant | 0.14 |
gyrA | 8255 | c.954C>A | synonymous_variant | 0.15 |
gyrA | 8452 | p.Ala384Val | missense_variant | 1.0 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9260 | c.1959G>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9338 | c.2037G>A | synonymous_variant | 0.12 |
fgd1 | 491348 | p.Gly189Ala | missense_variant | 0.12 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575162 | c.-186T>C | upstream_gene_variant | 0.14 |
mshA | 575368 | c.21T>C | synonymous_variant | 1.0 |
mshA | 575863 | c.516G>A | synonymous_variant | 0.12 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.5 |
rpoB | 762640 | p.Gly945Glu | missense_variant | 1.0 |
rpoB | 762847 | p.Pro1014Leu | missense_variant | 0.12 |
rpoB | 762898 | p.Val1031Ala | missense_variant | 0.1 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 763531 | c.162G>C | synonymous_variant | 1.0 |
rpoC | 763674 | p.Thr102Ser | missense_variant | 0.11 |
rpoC | 763831 | c.462A>G | synonymous_variant | 0.11 |
rpoC | 763884 | p.Ala172Val | missense_variant | 1.0 |
rpoC | 763886 | c.517C>A | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776983 | c.1498C>T | synonymous_variant | 0.15 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 801067 | p.Asp87Asn | missense_variant | 0.12 |
fbiC | 1302870 | c.-61G>A | upstream_gene_variant | 0.18 |
fbiC | 1304459 | c.1530_1531delCG | frameshift_variant | 0.15 |
Rv1258c | 1406198 | c.1143C>T | synonymous_variant | 0.13 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
embR | 1417320 | p.Arg10Trp | missense_variant | 0.15 |
atpE | 1460907 | c.-138T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472672 | n.827G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472762 | n.917C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1473521 | n.-136delT | upstream_gene_variant | 0.15 |
rrl | 1474732 | n.1075A>G | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476047 | n.2390G>A | non_coding_transcript_exon_variant | 0.12 |
inhA | 1674788 | p.Thr196Met | missense_variant | 0.17 |
rpsA | 1833591 | p.Gly17Asp | missense_variant | 0.17 |
rpsA | 1833897 | p.Leu119Pro | missense_variant | 0.12 |
tlyA | 1917817 | c.-123A>C | upstream_gene_variant | 0.19 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102606 | p.Glu146Gly | missense_variant | 0.18 |
ndh | 2102868 | p.Ala59Thr | missense_variant | 0.14 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2154850 | p.Gly421Asp | missense_variant | 0.18 |
PPE35 | 2167688 | c.2925C>T | synonymous_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2168087 | c.2526G>A | synonymous_variant | 0.13 |
PPE35 | 2168292 | p.Leu774Ser | missense_variant | 0.11 |
PPE35 | 2169571 | p.Ser348Gly | missense_variant | 0.11 |
Rv1979c | 2222308 | p.Asp286Ser | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2288692 | p.Cys184Arg | missense_variant | 0.15 |
pncA | 2288914 | p.Asp110Asn | missense_variant | 0.17 |
pncA | 2288994 | p.Pro83Leu | missense_variant | 0.15 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
kasA | 2519048 | p.Gly312Ser | missense_variant | 1.0 |
kasA | 2519078 | p.Glu322Lys | missense_variant | 0.14 |
eis | 2714349 | c.984G>A | synonymous_variant | 0.25 |
eis | 2714445 | c.888G>A | synonymous_variant | 0.2 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 1.0 |
folC | 2747762 | c.-164G>A | upstream_gene_variant | 0.12 |
pepQ | 2859438 | c.981T>C | synonymous_variant | 0.1 |
Rv2752c | 3066016 | p.Leu59Gln | missense_variant | 0.12 |
thyA | 3074005 | p.Asp156Ala | missense_variant | 0.12 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087464 | c.645C>T | synonymous_variant | 0.18 |
fbiD | 3339040 | c.-78T>C | upstream_gene_variant | 0.22 |
fbiD | 3339417 | c.300A>G | synonymous_variant | 1.0 |
fbiD | 3339741 | c.624G>T | synonymous_variant | 0.29 |
fbiD | 3339744 | c.627A>C | synonymous_variant | 0.29 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 1.0 |
Rv3083 | 3449096 | p.Gly198Asp | missense_variant | 0.2 |
fprA | 3473819 | c.-188A>C | upstream_gene_variant | 0.11 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474597 | c.591C>A | synonymous_variant | 1.0 |
fprA | 3474908 | p.Arg301Gln | missense_variant | 0.12 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
whiB7 | 3568488 | c.191delG | frameshift_variant | 1.0 |
Rv3236c | 3612138 | p.Gly327Ser | missense_variant | 0.14 |
Rv3236c | 3612413 | p.Ser235Trp | missense_variant | 0.2 |
Rv3236c | 3612592 | p.Asp175Glu | missense_variant | 0.13 |
Rv3236c | 3613025 | p.Ser31Leu | missense_variant | 0.2 |
Rv3236c | 3613239 | c.-123A>T | upstream_gene_variant | 0.18 |
Rv3236c | 3613299 | c.-183C>T | upstream_gene_variant | 0.2 |
fbiB | 3640557 | c.-978T>C | upstream_gene_variant | 1.0 |
fbiA | 3641347 | p.Ala269Thr | missense_variant | 0.22 |
fbiB | 3642592 | p.Val353Gly | missense_variant | 0.12 |
alr | 3840527 | c.894A>G | synonymous_variant | 0.13 |
alr | 3841516 | c.-96G>A | upstream_gene_variant | 0.12 |
rpoA | 3878329 | p.Leu60Gln | missense_variant | 0.13 |
clpC1 | 4038271 | p.Pro812Ser | missense_variant | 0.12 |
clpC1 | 4038789 | p.Leu639Pro | missense_variant | 0.12 |
clpC1 | 4040173 | p.Leu178Phe | missense_variant | 0.15 |
clpC1 | 4040222 | c.483G>A | synonymous_variant | 0.2 |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 1.0 |
clpC1 | 4040708 | c.-4A>G | upstream_gene_variant | 0.11 |
panD | 4044082 | p.Gly67Asp | missense_variant | 0.12 |
embC | 4240026 | p.Thr55Ile | missense_variant | 0.25 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4241042 | p.Asn394Asp | missense_variant | 1.0 |
embC | 4242170 | p.Thr770Ala | missense_variant | 0.1 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242933 | p.Val1024Glu | missense_variant | 0.15 |
embC | 4243083 | p.Asp1074Ala | missense_variant | 0.11 |
embA | 4243580 | c.348G>A | synonymous_variant | 1.0 |
embA | 4244184 | p.Ser318Gly | missense_variant | 0.12 |
embA | 4244212 | p.Pro327Arg | missense_variant | 0.11 |
embA | 4244420 | c.1188G>C | synonymous_variant | 1.0 |
embA | 4245969 | p.Pro913Ser | missense_variant | 1.0 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.5 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.6 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.6 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.6 |
embB | 4246563 | p.Leu17Trp | missense_variant | 0.75 |
embB | 4246567 | c.54G>T | synonymous_variant | 0.6 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.29 |
embB | 4247033 | p.Ser174Cys | missense_variant | 0.4 |
embB | 4247236 | c.723G>A | synonymous_variant | 0.15 |
embB | 4247252 | p.Ser247Pro | missense_variant | 0.17 |
embB | 4247578 | c.1065G>A | synonymous_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
embB | 4248437 | p.Thr642Ala | missense_variant | 0.11 |
embB | 4249744 | c.3231G>A | synonymous_variant | 0.17 |
embB | 4249751 | c.3238T>C | synonymous_variant | 0.14 |
aftB | 4267846 | p.Gly331Ser | missense_variant | 0.15 |
aftB | 4268576 | c.261C>A | synonymous_variant | 1.0 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
ethA | 4326045 | p.Gly477Ser | missense_variant | 0.12 |
ethR | 4327441 | c.-108G>A | upstream_gene_variant | 0.5 |
ethA | 4328157 | c.-684C>G | upstream_gene_variant | 0.18 |
whiB6 | 4338361 | p.Arg54Gln | missense_variant | 1.0 |
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 | 4407700 | p.His168Arg | missense_variant | 0.12 |
gid | 4407873 | c.330G>T | synonymous_variant | 1.0 |
gid | 4407958 | p.Ala82Val | missense_variant | 0.15 |
gid | 4408092 | c.111A>C | synonymous_variant | 0.29 |
gid | 4408099 | p.Leu35Arg | missense_variant | 0.29 |
gid | 4408113 | c.90T>G | synonymous_variant | 0.4 |