Run ID: ERR2229398
Sample name:
Date: 31-03-2023 17:09:27
Number of reads: 864305
Percentage reads mapped: 98.95
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 |
fgd1 | 491511 | c.729G>A | synonymous_variant | 0.11 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.2 |
mshA | 576521 | p.Gly392Trp | missense_variant | 0.15 |
rpoB | 761837 | c.2031C>T | synonymous_variant | 0.14 |
rpoC | 763394 | p.Glu9Gln | missense_variant | 0.1 |
rpoC | 765894 | p.Glu842Gly | missense_variant | 0.12 |
rpoC | 766695 | p.Gln1109Leu | missense_variant | 0.14 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776382 | p.Asp700Val | missense_variant | 0.15 |
mmpR5 | 779336 | p.Asp116Ala | missense_variant | 0.22 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 800732 | c.-77G>A | upstream_gene_variant | 0.14 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1475917 | n.2260T>C | non_coding_transcript_exon_variant | 0.1 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.32 |
fabG1 | 1673560 | p.Lys41Gln | missense_variant | 0.11 |
inhA | 1674019 | c.-183C>T | upstream_gene_variant | 0.25 |
inhA | 1674369 | c.168A>G | synonymous_variant | 0.25 |
inhA | 1674690 | c.489C>A | synonymous_variant | 0.12 |
rpsA | 1834672 | c.1131G>A | synonymous_variant | 0.15 |
rpsA | 1834860 | p.Ala440Val | missense_variant | 0.18 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2101673 | p.Ala457Gly | missense_variant | 0.12 |
PPE35 | 2167814 | c.2799C>T | synonymous_variant | 0.2 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2168865 | p.Thr583Lys | missense_variant | 0.2 |
PPE35 | 2169278 | c.1335T>C | synonymous_variant | 0.1 |
PPE35 | 2169281 | c.1332T>G | synonymous_variant | 0.1 |
PPE35 | 2169596 | p.Phe339Trp | missense_variant | 0.12 |
PPE35 | 2169725 | c.888T>C | synonymous_variant | 0.1 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.66 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.71 |
Rv1979c | 2222750 | c.415C>T | synonymous_variant | 0.13 |
Rv1979c | 2222826 | c.338delT | frameshift_variant | 0.22 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289762 | c.-521G>T | upstream_gene_variant | 0.25 |
kasA | 2518610 | p.Thr166Pro | missense_variant | 0.25 |
pepQ | 2860024 | p.Arg132Pro | missense_variant | 0.22 |
ribD | 2987052 | p.Asn72Asp | missense_variant | 0.12 |
Rv2752c | 3065524 | p.His223Leu | missense_variant | 0.17 |
thyX | 3067475 | p.Gln157His | missense_variant | 0.18 |
ald | 3087437 | p.Gln206His | missense_variant | 0.2 |
Rv3236c | 3613249 | c.-133A>T | upstream_gene_variant | 0.11 |
fbiB | 3641361 | c.-174C>A | upstream_gene_variant | 0.11 |
fbiB | 3641998 | p.Ala155Asp | missense_variant | 0.15 |
alr | 3840810 | p.Asp204Gly | missense_variant | 0.12 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.14 |
clpC1 | 4038396 | c.2307_2308delGG | frameshift_variant | 0.22 |
embC | 4240234 | c.372A>G | synonymous_variant | 0.11 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.17 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.27 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.3 |
embB | 4246563 | p.Leu17Trp | missense_variant | 0.33 |
embB | 4246567 | c.54G>T | synonymous_variant | 0.43 |
ethR | 4327793 | p.Gln82Arg | missense_variant | 0.18 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448497 | c.-6_*1408del | transcript_ablation | 1.0 |