Run ID: ERR2229200
Sample name:
Date: 31-03-2023 16:48:01
Number of reads: 568339
Percentage reads mapped: 99.13
Strain: lineage4.8
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 8459 | p.Glu386Asp | missense_variant | 0.12 |
gyrA | 9804 | p.Gln835* | stop_gained | 0.18 |
fgd1 | 490986 | c.204G>T | synonymous_variant | 0.13 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.43 |
mshA | 576111 | p.Ala255Gly | missense_variant | 0.4 |
mshA | 576114 | p.Arg256Pro | missense_variant | 0.67 |
rpoB | 762172 | p.Glu789Val | missense_variant | 0.2 |
rpoC | 764454 | p.Ala362Glu | missense_variant | 0.25 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776375 | c.2106A>G | synonymous_variant | 0.12 |
mmpL5 | 776381 | c.2100C>T | synonymous_variant | 0.13 |
mmpL5 | 776384 | c.2097C>A | synonymous_variant | 0.21 |
mmpL5 | 776387 | c.2094T>C | synonymous_variant | 0.15 |
mmpL5 | 776393 | c.2088C>T | synonymous_variant | 0.12 |
mmpL5 | 776397 | p.Val695Ala | missense_variant | 0.13 |
mmpL5 | 776402 | c.2079C>G | synonymous_variant | 0.14 |
mmpL5 | 776405 | c.2076T>G | synonymous_variant | 0.12 |
mmpL5 | 776417 | c.2064G>C | synonymous_variant | 0.12 |
mmpS5 | 778631 | p.Leu92Ser | missense_variant | 0.25 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.23 |
rpsA | 1833716 | p.Thr59Ser | missense_variant | 0.12 |
rpsA | 1833733 | c.192C>T | synonymous_variant | 0.14 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918482 | c.543G>T | synonymous_variant | 0.2 |
PPE35 | 2167865 | c.2748G>C | synonymous_variant | 0.3 |
PPE35 | 2167868 | c.2745A>C | synonymous_variant | 0.3 |
PPE35 | 2167906 | p.Ile903Leu | missense_variant | 0.25 |
PPE35 | 2167981 | p.Gly878* | stop_gained | 0.29 |
PPE35 | 2168554 | p.Ile687Leu | missense_variant | 0.18 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2169269 | c.1344A>G | synonymous_variant | 0.17 |
PPE35 | 2169272 | c.1341C>G | synonymous_variant | 0.15 |
PPE35 | 2169278 | c.1335T>C | synonymous_variant | 0.36 |
PPE35 | 2169281 | c.1332T>G | synonymous_variant | 0.36 |
PPE35 | 2169287 | c.1326T>C | synonymous_variant | 0.2 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.13 |
PPE35 | 2170372 | p.Thr81Ala | missense_variant | 0.2 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289098 | p.Lys48Asn | missense_variant | 0.18 |
kasA | 2518707 | p.Val198Gly | missense_variant | 0.22 |
kasA | 2518933 | p.Asp273Glu | missense_variant | 0.18 |
kasA | 2519189 | p.Val359Met | missense_variant | 0.2 |
thyX | 3067204 | p.Thr248Ser | missense_variant | 0.18 |
thyX | 3067995 | c.-50A>C | upstream_gene_variant | 0.21 |
ald | 3086650 | c.-170C>G | upstream_gene_variant | 0.2 |
whiB7 | 3568430 | p.Gly84Arg | missense_variant | 0.29 |
alr | 3841612 | c.-193_-192insC | upstream_gene_variant | 0.19 |
clpC1 | 4039526 | c.1179G>C | synonymous_variant | 0.15 |
panD | 4044201 | c.81C>A | synonymous_variant | 0.25 |
embC | 4239855 | c.-8A>G | upstream_gene_variant | 0.22 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246373 | c.-141T>C | upstream_gene_variant | 0.14 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.25 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.29 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.29 |
embB | 4247136 | p.Thr208Ser | missense_variant | 0.33 |
aftB | 4268560 | p.Leu93Met | missense_variant | 0.5 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407613 | p.Arg197His | missense_variant | 0.17 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |