Run ID: ERR031472
Sample name:
Date: 31-03-2023 08:27:04
Number of reads: 854123
Percentage reads mapped: 98.46
Strain: lineage6.1.2;lineage4.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 0.21 |
lineage6 | West-Africa 2 | AFRI_1 | RD702 | 0.33 |
lineage4.1 | Euro-American | T;X;H | None | 0.07 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 0.28 |
lineage6.1.2 | West-Africa 2 | AFRI_1 | RD702 | 0.1 |
lineage2.2.1.1 | East-Asian (Beijing) | Beijing-RD150 | RD105;RD207;RD181;RD150 | 0.08 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5266 | p.Gln9His | missense_variant | 0.11 |
gyrB | 5771 | p.Ala178Thr | missense_variant | 0.12 |
gyrB | 6438 | p.Pro400Arg | missense_variant | 0.12 |
gyrB | 6446 | p.Ala403Ser | missense_variant | 0.33 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 0.89 |
gyrA | 8040 | p.Gly247Ser | missense_variant | 0.13 |
gyrA | 8493 | p.Leu398Phe | missense_variant | 0.33 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 0.16 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 0.79 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 0.2 |
fgd1 | 491668 | p.Lys296Glu | missense_variant | 0.39 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 0.58 |
mshA | 575679 | p.Asn111Ser | missense_variant | 0.1 |
mshA | 575907 | p.Ala187Val | missense_variant | 0.14 |
ccsA | 620625 | p.Ile245Met | missense_variant | 0.27 |
rpoB | 759746 | c.-61C>T | upstream_gene_variant | 0.17 |
rpoB | 760855 | p.Thr350Ile | missense_variant | 0.17 |
rpoB | 760969 | p.Ser388Leu | missense_variant | 0.22 |
rpoB | 761723 | p.Glu639Asp | missense_variant | 0.22 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.59 |
rpoC | 766231 | c.2862T>C | synonymous_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 0.78 |
mmpL5 | 776182 | p.Asp767Asn | missense_variant | 0.4 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 0.25 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1302899 | c.-32A>G | upstream_gene_variant | 0.35 |
fbiC | 1304140 | p.Ala404Pro | missense_variant | 0.22 |
fbiC | 1304443 | p.Ala505Thr | missense_variant | 0.2 |
Rv1258c | 1406760 | c.580_581insC | frameshift_variant | 0.18 |
embR | 1416633 | p.Leu239Val | missense_variant | 0.31 |
atpE | 1461251 | c.207G>T | synonymous_variant | 0.17 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
inhA | 1674434 | p.Val78Ala | missense_variant | 0.21 |
inhA | 1674952 | p.Pro251Ala | missense_variant | 0.33 |
rpsA | 1834177 | c.636A>C | synonymous_variant | 0.22 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2103034 | c.9C>T | synonymous_variant | 0.21 |
katG | 2154724 | p.Arg463Leu | missense_variant | 0.75 |
katG | 2155503 | c.609C>T | synonymous_variant | 0.14 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.85 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 0.29 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 0.25 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 0.15 |
kasA | 2518132 | c.18C>T | synonymous_variant | 0.29 |
eis | 2714846 | p.Val163Ile | missense_variant | 0.2 |
ald | 3086728 | c.-92C>T | upstream_gene_variant | 0.12 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087084 | c.266delA | frameshift_variant | 0.42 |
Rv3083 | 3449066 | c.565delG | frameshift_variant | 0.4 |
Rv3083 | 3449932 | p.Pro477Ser | missense_variant | 0.46 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 0.8 |
fprA | 3474992 | p.Thr329Met | missense_variant | 0.17 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 0.19 |
Rv3236c | 3612143 | p.Arg325His | missense_variant | 0.29 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 0.18 |
embC | 4241843 | p.Leu661Ile | missense_variant | 0.29 |
embC | 4242075 | p.Arg738Gln | missense_variant | 0.18 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243460 | c.228C>T | synonymous_variant | 0.24 |
embA | 4244220 | c.988C>T | synonymous_variant | 0.31 |
embA | 4244379 | p.Pro383Ser | missense_variant | 0.44 |
embB | 4246864 | c.351C>T | synonymous_variant | 0.45 |
embB | 4247646 | p.Glu378Ala | missense_variant | 0.18 |
embB | 4248115 | c.1602C>T | synonymous_variant | 0.12 |
aftB | 4267647 | p.Asp397Gly | missense_variant | 0.2 |
aftB | 4268525 | c.312G>C | synonymous_variant | 0.23 |
aftB | 4269351 | c.-515C>T | upstream_gene_variant | 0.5 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 0.24 |
aftB | 4269522 | c.-686C>T | upstream_gene_variant | 0.17 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 0.31 |
ethA | 4326465 | p.Ile337Val | missense_variant | 0.33 |
whiB6 | 4338575 | c.-54A>G | upstream_gene_variant | 0.27 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 0.85 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.62 |
gid | 4407927 | p.Glu92Asp | missense_variant | 0.17 |
gid | 4408034 | p.Glu57Lys | missense_variant | 0.25 |
gid | 4408259 | c.-57G>T | upstream_gene_variant | 0.14 |