Run ID: ERR2229229
Sample name:
Date: 31-03-2023 16:50:04
Number of reads: 478794
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 | 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 | 8941 | c.1644delG | frameshift_variant | 0.14 |
mshA | 575729 | p.Gln128Lys | missense_variant | 0.33 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.27 |
rpoB | 760619 | c.813C>A | synonymous_variant | 0.4 |
rpoB | 761409 | p.Val535Leu | missense_variant | 0.2 |
rpoC | 764826 | p.Val486Ala | missense_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776420 | c.2061C>T | synonymous_variant | 0.5 |
mmpL5 | 777614 | c.867C>T | synonymous_variant | 0.29 |
mmpL5 | 777658 | p.Thr275Pro | missense_variant | 0.4 |
mmpL5 | 777966 | p.Ile172Asn | missense_variant | 0.22 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
fbiC | 1304715 | c.1785G>C | synonymous_variant | 0.18 |
fbiC | 1305389 | p.Ala820Val | missense_variant | 0.18 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1475305 | n.1648A>G | non_coding_transcript_exon_variant | 0.4 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.33 |
rpsA | 1833666 | p.Thr42Ser | missense_variant | 0.4 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918191 | c.252G>A | synonymous_variant | 0.4 |
katG | 2155344 | c.768C>T | synonymous_variant | 0.29 |
katG | 2155990 | p.Asn41Ser | missense_variant | 0.22 |
PPE35 | 2167833 | p.Leu927Arg | missense_variant | 0.18 |
PPE35 | 2167965 | p.Ala883Gly | missense_variant | 0.19 |
PPE35 | 2167967 | c.2646A>C | synonymous_variant | 0.19 |
PPE35 | 2168329 | p.Pro762Thr | missense_variant | 0.2 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2169570 | p.Ser348Asn | missense_variant | 0.12 |
PPE35 | 2169578 | c.1035T>C | synonymous_variant | 0.12 |
PPE35 | 2169638 | c.975T>C | synonymous_variant | 0.12 |
PPE35 | 2169902 | p.Leu237Phe | missense_variant | 0.25 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.44 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.39 |
PPE35 | 2170147 | p.Ser156Ala | missense_variant | 0.18 |
PPE35 | 2170220 | c.393C>G | synonymous_variant | 0.22 |
PPE35 | 2170229 | c.384A>G | synonymous_variant | 0.15 |
PPE35 | 2170232 | c.381T>A | synonymous_variant | 0.14 |
PPE35 | 2170238 | c.375T>G | synonymous_variant | 0.14 |
PPE35 | 2170247 | p.Ile122Met | missense_variant | 0.16 |
PPE35 | 2170259 | p.Ile118Met | missense_variant | 0.15 |
PPE35 | 2170372 | p.Thr81Ala | missense_variant | 0.12 |
PPE35 | 2170376 | c.237G>A | synonymous_variant | 0.12 |
PPE35 | 2170454 | c.159C>G | synonymous_variant | 0.18 |
PPE35 | 2170528 | p.Ser29Ala | missense_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2288785 | p.Thr153Ser | missense_variant | 0.2 |
pncA | 2288793 | p.Gly150Asp | missense_variant | 0.17 |
kasA | 2518317 | p.Val68Ala | missense_variant | 0.2 |
eis | 2715268 | p.Ala22Asp | missense_variant | 0.13 |
pepQ | 2860414 | p.Thr2Ile | missense_variant | 0.33 |
Rv2752c | 3065104 | p.Val363Ala | missense_variant | 0.22 |
thyX | 3068011 | c.-66C>T | upstream_gene_variant | 0.29 |
thyX | 3068015 | c.-70T>G | upstream_gene_variant | 0.29 |
thyA | 3074217 | p.Ser85Arg | missense_variant | 0.5 |
fbiA | 3640681 | p.Val47Phe | missense_variant | 0.12 |
fbiB | 3641697 | p.Lys55Glu | missense_variant | 0.17 |
fbiB | 3642621 | p.Ala363Thr | missense_variant | 0.18 |
alr | 3840670 | p.Val251Leu | missense_variant | 0.29 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.2 |
rpoA | 3878164 | p.Gly115Val | missense_variant | 0.14 |
ddn | 3986728 | c.-116T>A | upstream_gene_variant | 0.14 |
clpC1 | 4040340 | c.364delC | frameshift_variant | 0.2 |
embC | 4240353 | p.Val164Gly | missense_variant | 0.5 |
embC | 4241220 | p.Ile453Ser | missense_variant | 0.29 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4244082 | p.Ala284Thr | missense_variant | 0.15 |
embB | 4245923 | c.-591C>A | upstream_gene_variant | 0.5 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.33 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.33 |
embB | 4246563 | p.Leu17Trp | missense_variant | 0.33 |
embB | 4248310 | c.1797C>T | synonymous_variant | 0.29 |
embB | 4248707 | p.Thr732Pro | missense_variant | 0.29 |
ubiA | 4269017 | p.Glu273* | stop_gained | 0.17 |
ethA | 4327504 | c.-31G>C | upstream_gene_variant | 0.25 |
whiB6 | 4338373 | p.Lys50Arg | missense_variant | 0.2 |
whiB6 | 4338418 | p.Thr35Met | missense_variant | 0.18 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448497 | c.-6_*1408del | transcript_ablation | 1.0 |