Run ID: ERR2229575
Sample name:
Date: 31-03-2023 17:19:35
Number of reads: 468891
Percentage reads mapped: 98.83
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 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5659 | p.Lys140Asn | missense_variant | 0.29 |
gyrB | 6387 | p.Phe383Tyr | missense_variant | 0.12 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7600 | p.Ala100Asp | missense_variant | 0.15 |
gyrA | 9684 | p.Gly795Arg | missense_variant | 0.14 |
fgd1 | 491660 | p.Ala293Asp | missense_variant | 0.25 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.33 |
mshA | 576611 | p.Ala422Ser | missense_variant | 0.18 |
rpoB | 760177 | p.Ala124Glu | missense_variant | 0.2 |
rpoC | 763672 | c.303C>A | synonymous_variant | 0.33 |
rpoC | 763983 | p.Met205Thr | missense_variant | 0.29 |
rpoC | 764990 | p.Met541Val | missense_variant | 0.29 |
rpoC | 766390 | c.3021C>T | synonymous_variant | 0.22 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777614 | c.867C>T | synonymous_variant | 0.4 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781473 | c.-87C>G | upstream_gene_variant | 0.29 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
fbiC | 1304088 | c.1158C>T | synonymous_variant | 0.4 |
Rv1258c | 1406240 | c.1101C>T | synonymous_variant | 0.22 |
embR | 1416912 | p.Arg146Cys | missense_variant | 0.67 |
embR | 1417442 | c.-95C>A | upstream_gene_variant | 0.13 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1473227 | n.1382C>A | non_coding_transcript_exon_variant | 0.2 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.17 |
fabG1 | 1673648 | p.Arg70His | missense_variant | 0.25 |
rpsA | 1834468 | c.927A>T | synonymous_variant | 0.14 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102071 | c.972C>G | synonymous_variant | 0.17 |
katG | 2154507 | p.Asn535Lys | missense_variant | 0.14 |
katG | 2155224 | p.Met296Ile | missense_variant | 0.2 |
katG | 2156105 | p.Glu3* | stop_gained | 0.15 |
PPE35 | 2168081 | c.2532C>A | synonymous_variant | 0.4 |
PPE35 | 2168216 | p.Phe799Leu | missense_variant | 1.0 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2169278 | c.1335T>C | synonymous_variant | 0.33 |
PPE35 | 2169281 | c.1332T>G | synonymous_variant | 0.36 |
PPE35 | 2169381 | p.Trp411Leu | missense_variant | 0.18 |
PPE35 | 2169386 | c.1227C>A | synonymous_variant | 0.15 |
PPE35 | 2169394 | p.Ala407Ser | missense_variant | 0.13 |
PPE35 | 2169411 | p.Thr401Asp | missense_variant | 0.13 |
PPE35 | 2169413 | c.1200T>C | synonymous_variant | 0.13 |
PPE35 | 2169902 | p.Leu237Phe | missense_variant | 0.32 |
PPE35 | 2169910 | p.Asn235Tyr | missense_variant | 0.31 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.45 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.5 |
PPE35 | 2170159 | p.Ala152Ser | missense_variant | 0.16 |
PPE35 | 2170232 | c.381T>C | synonymous_variant | 0.12 |
Rv1979c | 2221749 | c.1416C>A | synonymous_variant | 0.15 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2288879 | c.363G>T | synonymous_variant | 0.17 |
kasA | 2517984 | c.-131G>T | upstream_gene_variant | 0.2 |
kasA | 2518798 | c.684G>C | synonymous_variant | 0.2 |
kasA | 2519177 | p.Ser355Thr | missense_variant | 0.25 |
eis | 2714658 | c.675G>T | synonymous_variant | 0.18 |
eis | 2714679 | c.654G>T | synonymous_variant | 0.15 |
folC | 2746847 | p.Arg251Pro | missense_variant | 0.33 |
folC | 2747468 | p.Asp44Gly | missense_variant | 0.4 |
pepQ | 2860213 | p.Pro69Leu | missense_variant | 0.29 |
pepQ | 2860545 | c.-127G>C | upstream_gene_variant | 0.2 |
ribD | 2987436 | p.Gly200Trp | missense_variant | 0.4 |
Rv2752c | 3065181 | c.1011G>T | synonymous_variant | 0.25 |
Rv2752c | 3066175 | p.Pro6Leu | missense_variant | 0.15 |
Rv2752c | 3067177 | c.-986G>T | upstream_gene_variant | 0.25 |
thyX | 3067517 | p.Tyr143* | stop_gained | 0.18 |
thyA | 3073783 | p.Leu230Gln | missense_variant | 0.14 |
ald | 3087792 | p.Ala325Thr | missense_variant | 0.29 |
fbiD | 3339681 | p.Asp188Glu | missense_variant | 0.25 |
Rv3236c | 3612769 | c.348T>C | synonymous_variant | 0.18 |
fbiA | 3640945 | p.Arg135Cys | missense_variant | 0.22 |
fbiB | 3641638 | p.Ala35Gly | missense_variant | 0.29 |
fbiB | 3641963 | c.429C>A | synonymous_variant | 0.33 |
alr | 3840385 | p.Phe346Leu | missense_variant | 0.18 |
alr | 3840490 | p.Pro311Thr | missense_variant | 0.18 |
alr | 3840648 | p.Tyr258Cys | missense_variant | 0.15 |
alr | 3841539 | c.-119C>T | upstream_gene_variant | 0.14 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.33 |
rpoA | 3878318 | p.Thr64Ala | missense_variant | 0.22 |
ddn | 3986712 | c.-132A>T | upstream_gene_variant | 0.18 |
clpC1 | 4038229 | p.Pro826Thr | missense_variant | 0.4 |
clpC1 | 4038452 | c.2253G>T | synonymous_variant | 0.22 |
clpC1 | 4038842 | c.1863G>A | synonymous_variant | 0.14 |
clpC1 | 4039634 | p.Glu357Gly | missense_variant | 0.25 |
clpC1 | 4039645 | p.His354Asp | missense_variant | 0.25 |
panD | 4044054 | c.228G>A | synonymous_variant | 0.4 |
embC | 4241145 | p.Ala428Asp | missense_variant | 0.15 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.44 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.4 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.4 |
embB | 4247972 | p.Thr487Ala | missense_variant | 0.12 |
embB | 4248319 | c.1806A>T | synonymous_variant | 0.2 |
embB | 4248444 | p.Asn644Ser | missense_variant | 0.17 |
embB | 4248446 | p.Gly645Arg | missense_variant | 0.17 |
embB | 4249386 | p.Glu958Gly | missense_variant | 0.15 |
aftB | 4267444 | p.Met465Val | missense_variant | 0.14 |
ethA | 4326519 | c.955C>A | synonymous_variant | 0.33 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407627 | c.576C>A | synonymous_variant | 0.29 |
gid | 4407635 | p.Thr190Ser | missense_variant | 0.33 |
gid | 4408409 | c.-207T>C | upstream_gene_variant | 0.18 |