Run ID: ERR2228868
Sample name:
Date: 31-03-2023 16:24:32
Number of reads: 870861
Percentage reads mapped: 99.27
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 | 7812 | p.Pro171Thr | missense_variant | 0.13 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.18 |
mshA | 576711 | p.Arg455Gln | missense_variant | 0.13 |
mshA | 576745 | c.1398G>C | synonymous_variant | 0.18 |
mshA | 576752 | p.Pro469Ala | missense_variant | 0.22 |
rpoB | 759702 | c.-105T>G | upstream_gene_variant | 0.11 |
rpoB | 762502 | p.Pro899Gln | missense_variant | 0.25 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775927 | c.2554C>T | synonymous_variant | 0.25 |
mmpL5 | 775931 | c.2550C>T | synonymous_variant | 0.25 |
mmpL5 | 776231 | c.2250G>T | synonymous_variant | 0.33 |
mmpL5 | 776401 | p.Glu694Lys | missense_variant | 0.18 |
mmpL5 | 776729 | c.1752C>T | synonymous_variant | 0.13 |
mmpL5 | 777119 | p.His454Gln | missense_variant | 0.19 |
mmpL5 | 777122 | c.1359C>T | synonymous_variant | 0.19 |
mmpL5 | 777128 | c.1353A>G | synonymous_variant | 0.19 |
mmpR5 | 778121 | c.-869G>T | upstream_gene_variant | 0.12 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 801275 | p.Thr156Lys | missense_variant | 0.12 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
embR | 1417446 | c.-99G>T | upstream_gene_variant | 0.15 |
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 | 0.16 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918701 | p.Lys254Asn | missense_variant | 0.15 |
katG | 2155039 | p.Gly358Asp | missense_variant | 0.12 |
katG | 2155267 | p.Asp282Val | missense_variant | 0.25 |
PPE35 | 2167814 | c.2799C>T | synonymous_variant | 0.17 |
PPE35 | 2167865 | c.2748G>C | synonymous_variant | 0.18 |
PPE35 | 2167868 | c.2745A>C | synonymous_variant | 0.18 |
PPE35 | 2167997 | c.2616G>C | synonymous_variant | 0.2 |
PPE35 | 2168140 | p.Ala825Thr | missense_variant | 0.15 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2169269 | c.1344A>G | synonymous_variant | 0.23 |
PPE35 | 2169272 | c.1341C>G | synonymous_variant | 0.25 |
PPE35 | 2169278 | c.1335T>C | synonymous_variant | 0.23 |
PPE35 | 2169281 | c.1332T>G | synonymous_variant | 0.24 |
PPE35 | 2169717 | p.Asn299Ile | missense_variant | 0.15 |
PPE35 | 2169725 | c.888T>C | synonymous_variant | 0.14 |
PPE35 | 2169902 | p.Leu237Phe | missense_variant | 0.24 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.53 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.53 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518606 | c.492G>C | synonymous_variant | 0.2 |
kasA | 2518809 | p.Lys232Arg | missense_variant | 0.18 |
kasA | 2518839 | p.Ala242Gly | missense_variant | 0.17 |
kasA | 2519140 | c.1026G>C | synonymous_variant | 0.29 |
kasA | 2519143 | c.1029G>C | synonymous_variant | 0.31 |
eis | 2714499 | c.834G>T | synonymous_variant | 0.13 |
eis | 2715000 | c.333C>A | synonymous_variant | 0.12 |
folC | 2746484 | p.Phe372Ser | missense_variant | 0.33 |
Rv2752c | 3064629 | c.1563C>T | synonymous_variant | 0.2 |
thyA | 3074571 | c.-100T>C | upstream_gene_variant | 0.13 |
ald | 3087847 | p.Leu343Pro | missense_variant | 0.14 |
fbiD | 3339725 | p.Val203Ala | missense_variant | 0.33 |
fprA | 3474653 | p.Ala216Val | missense_variant | 0.12 |
fprA | 3474865 | p.Ile287Val | missense_variant | 0.17 |
Rv3236c | 3612591 | p.Gly176Cys | missense_variant | 0.17 |
Rv3236c | 3612931 | c.186G>T | synonymous_variant | 0.18 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.37 |
ddn | 3986737 | c.-107G>T | upstream_gene_variant | 0.14 |
clpC1 | 4039645 | p.His354Asp | missense_variant | 0.17 |
clpC1 | 4039730 | c.975C>G | synonymous_variant | 0.19 |
clpC1 | 4039829 | p.Leu292Phe | missense_variant | 0.14 |
clpC1 | 4040144 | c.561G>C | synonymous_variant | 0.33 |
clpC1 | 4040429 | p.Leu92Phe | missense_variant | 0.17 |
clpC1 | 4040433 | p.Ser91Thr | missense_variant | 0.15 |
clpC1 | 4040435 | c.270G>C | synonymous_variant | 0.15 |
embC | 4240801 | c.939C>T | synonymous_variant | 0.13 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.18 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.18 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.38 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.38 |
embB | 4246563 | p.Leu17Trp | missense_variant | 0.43 |
embB | 4246567 | c.54G>T | synonymous_variant | 0.43 |
aftB | 4268727 | p.Thr37Lys | missense_variant | 0.15 |
ubiA | 4269577 | p.Thr86Ile | missense_variant | 0.14 |
ethA | 4327477 | c.-4A>T | upstream_gene_variant | 0.13 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |