Run ID: ERR4829606
Sample name:
Date: 01-04-2023 19:34:58
Number of reads: 2599044
Percentage reads mapped: 89.7
Strain: lineage4.1.2.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.1 | Euro-American | T;X;H | None | 0.98 |
lineage4.1.2 | Euro-American | T;H | None | 0.99 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 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 | 7490 | c.189C>G | synonymous_variant | 0.13 |
gyrA | 7502 | c.201C>T | synonymous_variant | 0.13 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7697 | c.396C>G | synonymous_variant | 0.13 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 0.98 |
mshA | 575679 | p.Asn111Ser | missense_variant | 0.97 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.31 |
mshA | 576482 | p.Val379Leu | missense_variant | 0.15 |
rpoB | 760115 | c.309C>T | synonymous_variant | 0.98 |
rpoB | 760892 | c.1086C>T | synonymous_variant | 0.14 |
rpoB | 760916 | c.1110C>G | synonymous_variant | 0.14 |
rpoB | 760919 | c.1113C>G | synonymous_variant | 0.14 |
rpoB | 760925 | c.1119T>C | synonymous_variant | 0.14 |
rpoB | 760928 | c.1122G>C | synonymous_variant | 0.13 |
rpoB | 760931 | c.1125C>G | synonymous_variant | 0.13 |
rpoB | 761180 | c.1374A>C | synonymous_variant | 0.14 |
rpoB | 761240 | c.1434C>T | synonymous_variant | 0.14 |
rpoB | 761282 | c.1476C>G | synonymous_variant | 0.12 |
rpoB | 761636 | c.1830G>T | synonymous_variant | 0.13 |
rpoB | 761645 | c.1839C>A | synonymous_variant | 0.13 |
rpoB | 761648 | c.1842T>C | synonymous_variant | 0.14 |
rpoC | 762410 | c.-960T>C | upstream_gene_variant | 0.13 |
rpoC | 762416 | c.-954A>G | upstream_gene_variant | 0.14 |
rpoC | 762431 | c.-939C>T | upstream_gene_variant | 0.17 |
rpoC | 762449 | c.-921C>A | upstream_gene_variant | 0.14 |
rpoC | 762929 | c.-441G>T | upstream_gene_variant | 0.13 |
rpoC | 762962 | c.-408C>T | upstream_gene_variant | 0.14 |
rpoC | 762983 | c.-387C>G | upstream_gene_variant | 0.13 |
rpoC | 762995 | c.-375G>T | upstream_gene_variant | 0.14 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.16 |
rpoC | 763034 | c.-336C>G | upstream_gene_variant | 0.15 |
rpoC | 763040 | c.-330C>G | upstream_gene_variant | 0.15 |
rpoC | 763050 | c.-320C>T | upstream_gene_variant | 0.14 |
rpoC | 763070 | c.-300T>C | upstream_gene_variant | 0.13 |
rpoC | 763082 | c.-288C>T | upstream_gene_variant | 0.15 |
rpoC | 763085 | c.-285C>G | upstream_gene_variant | 0.14 |
rpoC | 763703 | c.334_336delTCGinsAGC | synonymous_variant | 0.15 |
rpoC | 763709 | c.340C>T | synonymous_variant | 0.15 |
rpoC | 763714 | c.345G>C | synonymous_variant | 0.15 |
rpoC | 763726 | c.357C>T | synonymous_variant | 0.18 |
rpoC | 763732 | c.363C>G | synonymous_variant | 0.16 |
rpoC | 763741 | c.372C>T | synonymous_variant | 0.19 |
rpoC | 763744 | c.375G>C | synonymous_variant | 0.16 |
rpoC | 763765 | c.396T>G | synonymous_variant | 0.19 |
rpoC | 763771 | c.402C>T | synonymous_variant | 0.22 |
rpoC | 763780 | c.411C>G | synonymous_variant | 0.21 |
rpoC | 763792 | p.Glu141Asp | missense_variant | 0.2 |
rpoC | 763801 | c.432C>G | synonymous_variant | 0.21 |
rpoC | 763807 | c.438T>C | synonymous_variant | 0.21 |
rpoC | 763836 | p.Ala156Val | missense_variant | 0.19 |
rpoC | 763888 | c.519G>C | synonymous_variant | 0.16 |
rpoC | 763891 | c.522G>C | synonymous_variant | 0.17 |
rpoC | 763894 | c.525A>G | synonymous_variant | 0.16 |
rpoC | 763936 | c.567C>G | synonymous_variant | 0.15 |
rpoC | 763939 | c.570G>A | synonymous_variant | 0.15 |
rpoC | 763951 | c.582G>A | synonymous_variant | 0.15 |
rpoC | 763963 | c.594C>G | synonymous_variant | 0.15 |
rpoC | 764167 | c.798G>A | synonymous_variant | 0.13 |
rpoC | 764188 | c.819A>G | synonymous_variant | 0.15 |
rpoC | 764215 | c.846A>C | synonymous_variant | 0.14 |
rpoC | 764218 | c.849C>T | synonymous_variant | 0.14 |
rpoC | 764242 | c.873C>T | synonymous_variant | 0.17 |
rpoC | 764245 | c.876C>A | synonymous_variant | 0.15 |
rpoC | 764246 | c.877_879delCTCinsTTG | synonymous_variant | 0.15 |
rpoC | 764263 | c.894G>C | synonymous_variant | 0.17 |
rpoC | 764266 | c.897T>C | synonymous_variant | 0.18 |
rpoC | 764278 | c.909A>G | synonymous_variant | 0.19 |
rpoC | 764293 | c.924G>C | synonymous_variant | 0.19 |
rpoC | 764317 | c.948C>G | synonymous_variant | 0.17 |
rpoC | 764320 | c.951C>G | synonymous_variant | 0.16 |
rpoC | 764389 | p.Leu340Phe | missense_variant | 0.12 |
rpoC | 764405 | c.1036_1038delAGGinsCGC | synonymous_variant | 0.14 |
rpoC | 764428 | c.1059G>C | synonymous_variant | 0.14 |
rpoC | 764431 | c.1062G>C | synonymous_variant | 0.14 |
rpoC | 764434 | c.1065A>G | synonymous_variant | 0.14 |
rpoC | 764461 | c.1092A>G | synonymous_variant | 0.14 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
rpoC | 765622 | p.Glu751Asp | missense_variant | 0.13 |
rpoC | 765883 | c.2514C>G | synonymous_variant | 0.16 |
rpoC | 765886 | c.2517C>G | synonymous_variant | 0.16 |
rpoC | 765892 | c.2523T>C | synonymous_variant | 0.16 |
rpoC | 765934 | c.2565C>T | synonymous_variant | 0.17 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1407489 | c.-149G>A | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
inhA | 1674619 | p.Pro140Ser | missense_variant | 0.14 |
inhA | 1674627 | c.426T>C | synonymous_variant | 0.13 |
rpsA | 1833847 | c.306C>G | synonymous_variant | 0.13 |
rpsA | 1833856 | c.315A>G | synonymous_variant | 0.13 |
rpsA | 1833949 | c.408T>C | synonymous_variant | 0.13 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 1.0 |
Rv2752c | 3066299 | c.-108C>T | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
rpoA | 3877758 | c.750G>C | synonymous_variant | 0.16 |
rpoA | 3877764 | c.744C>G | synonymous_variant | 0.17 |
rpoA | 3877770 | c.738A>G | synonymous_variant | 0.16 |
rpoA | 3877776 | c.732T>C | synonymous_variant | 0.16 |
rpoA | 3877782 | c.726T>C | synonymous_variant | 0.15 |
rpoA | 3877839 | c.669G>C | synonymous_variant | 0.13 |
rpoA | 3877851 | c.657C>T | synonymous_variant | 0.13 |
rpoA | 3877875 | c.633T>C | synonymous_variant | 0.13 |
rpoA | 3878346 | c.162T>C | synonymous_variant | 0.13 |
rpoA | 3878665 | c.-158A>G | upstream_gene_variant | 0.2 |
rpoA | 3878685 | c.-178C>T | upstream_gene_variant | 0.18 |
rpoA | 3878698 | c.-191A>G | upstream_gene_variant | 0.13 |
clpC1 | 4039022 | c.1683A>G | synonymous_variant | 0.14 |
clpC1 | 4039025 | c.1680C>G | synonymous_variant | 0.13 |
clpC1 | 4040000 | c.705C>T | synonymous_variant | 0.15 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.35 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |