Run ID: ERR2513895
Sample name:
Date: 31-03-2023 19:58:38
Number of reads: 682060
Percentage reads mapped: 99.66
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 | 8855 | c.1554C>T | synonymous_variant | 0.13 |
mshA | 576188 | p.Asp281Asn | missense_variant | 0.2 |
ccsA | 619831 | c.-60T>G | upstream_gene_variant | 0.33 |
rpoB | 762480 | p.Ile892Val | missense_variant | 0.11 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777119 | p.His454Gln | missense_variant | 0.15 |
mmpL5 | 777122 | c.1359C>T | synonymous_variant | 0.15 |
mmpL5 | 777128 | c.1353A>G | synonymous_variant | 0.12 |
mmpL5 | 777580 | p.Thr301Ser | missense_variant | 0.11 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 0.88 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2101923 | p.Ser374Pro | missense_variant | 0.15 |
PPE35 | 2167745 | p.Thr956Arg | missense_variant | 0.17 |
PPE35 | 2167965 | p.Ala883Gly | missense_variant | 0.13 |
PPE35 | 2167967 | c.2646A>C | synonymous_variant | 0.13 |
PPE35 | 2169269 | c.1344A>G | synonymous_variant | 0.23 |
PPE35 | 2169272 | c.1341C>G | synonymous_variant | 0.26 |
PPE35 | 2169278 | c.1335T>C | synonymous_variant | 0.25 |
PPE35 | 2169281 | c.1332T>G | synonymous_variant | 0.25 |
PPE35 | 2169287 | c.1326T>C | synonymous_variant | 0.21 |
PPE35 | 2169293 | c.1320T>C | synonymous_variant | 0.12 |
PPE35 | 2169902 | c.711G>C | synonymous_variant | 0.12 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.39 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.39 |
PPE35 | 2170392 | p.Gly74Ala | missense_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518864 | c.750G>C | synonymous_variant | 0.16 |
kasA | 2519140 | c.1026G>C | synonymous_variant | 0.12 |
kasA | 2519143 | c.1029G>C | synonymous_variant | 0.12 |
kasA | 2519153 | p.Ile347Val | missense_variant | 0.13 |
folC | 2746735 | c.864C>T | synonymous_variant | 0.25 |
folC | 2746857 | p.Glu248Lys | missense_variant | 0.14 |
pepQ | 2859832 | p.Ala196Gly | missense_variant | 0.17 |
ribD | 2987588 | p.Tyr250* | stop_gained | 0.12 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.31 |
ddn | 3987268 | p.Arg142Pro | missense_variant | 0.12 |
clpC1 | 4040144 | c.561G>C | synonymous_variant | 0.15 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246151 | c.-363A>G | upstream_gene_variant | 1.0 |
embB | 4246637 | p.Val42Leu | missense_variant | 1.0 |
ethR | 4326961 | c.-588G>C | upstream_gene_variant | 0.16 |
ethR | 4326964 | c.-585G>A | upstream_gene_variant | 0.16 |
ethR | 4326970 | c.-579G>T | upstream_gene_variant | 0.19 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
whiB6 | 4338600 | c.-79T>G | upstream_gene_variant | 0.62 |
whiB6 | 4338602 | c.-81A>T | upstream_gene_variant | 0.62 |
whiB6 | 4338610 | c.-89G>A | upstream_gene_variant | 0.12 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |