Run ID: SRR6480494
Sample name:
Date: 04-04-2023 14:41:13
Number of reads: 1756830
Percentage reads mapped: 99.65
Strain: lineage4.3;lineage1.2.1.2.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 0.91 |
lineage1 | Indo-Oceanic | EAI | RD239 | 0.08 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 0.83 |
lineage1.2.1 | Indo-Oceanic | EAI2 | RD239 | 0.1 |
lineage1.2.1.2 | Indo-Oceanic | NA | RD239 | 0.13 |
lineage1.2.1.2.1 | Indo-Oceanic | NA | RD239 | 0.07 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8452 | p.Ala384Val | missense_variant | 0.14 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 0.2 |
gyrA | 9260 | c.1959G>C | synonymous_variant | 0.14 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 0.13 |
mshA | 575368 | c.21T>C | synonymous_variant | 0.21 |
mshA | 575442 | p.Gly32Glu | missense_variant | 0.16 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.25 |
rpoC | 763884 | p.Ala172Val | missense_variant | 0.14 |
rpoC | 763886 | c.517C>A | synonymous_variant | 0.14 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 0.89 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 0.16 |
mmpL5 | 776686 | p.Ser599Ala | missense_variant | 0.85 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1305181 | c.2251T>C | synonymous_variant | 0.85 |
Rv1258c | 1406312 | c.1029T>C | synonymous_variant | 0.12 |
embR | 1417019 | p.Cys110Tyr | missense_variant | 0.12 |
atpE | 1460907 | c.-138T>C | upstream_gene_variant | 0.16 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
inhA | 1674162 | c.-40C>T | upstream_gene_variant | 0.29 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.21 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289524 | c.-283C>T | upstream_gene_variant | 0.14 |
kasA | 2518132 | c.18C>T | synonymous_variant | 0.17 |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 0.24 |
thyX | 3067493 | p.Glu151Asp | missense_variant | 0.77 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.15 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 0.91 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339417 | c.300A>G | synonymous_variant | 0.16 |
Rv3083 | 3448714 | p.Asp71His | missense_variant | 0.21 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474597 | c.591C>A | synonymous_variant | 0.11 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 0.16 |
whiB7 | 3568488 | c.191delG | frameshift_variant | 0.22 |
fbiB | 3640557 | c.-978T>C | upstream_gene_variant | 0.3 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 0.86 |
embC | 4240671 | p.Thr270Ile | missense_variant | 0.2 |
embC | 4241042 | p.Asn394Asp | missense_variant | 0.2 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243580 | c.348G>A | synonymous_variant | 0.23 |
embA | 4244420 | c.1188G>C | synonymous_variant | 0.19 |
embA | 4245969 | p.Pro913Ser | missense_variant | 0.16 |
embB | 4247578 | c.1065G>A | synonymous_variant | 0.21 |
embB | 4247646 | p.Glu378Ala | missense_variant | 0.16 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 0.13 |
ubiA | 4269864 | c.-32delG | upstream_gene_variant | 0.23 |
whiB6 | 4338361 | p.Arg54Gln | missense_variant | 0.17 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 0.16 |
gid | 4407873 | c.330G>T | synonymous_variant | 0.17 |
gid | 4407946 | p.Leu86Arg | missense_variant | 0.15 |
gid | 4408156 | p.Leu16Arg | missense_variant | 0.79 |