Run ID: ERR11050561
Sample name:
Date: 03-04-2023 10:47:38
Number of reads: 6042151
Percentage reads mapped: 99.68
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 | 9647 | c.2346C>G | synonymous_variant | 0.2 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.18 |
mshA | 576456 | p.Val370Gly | missense_variant | 0.28 |
mshA | 576616 | c.1269G>C | synonymous_variant | 0.28 |
rpoC | 764367 | p.Gly333Ala | missense_variant | 0.19 |
rpoC | 766085 | p.Pro906Ala | missense_variant | 0.99 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 0.99 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
atpE | 1460992 | c.-53A>C | upstream_gene_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 |
fabG1 | 1673553 | p.Asp38Glu | missense_variant | 0.3 |
rpsA | 1834028 | p.Pro163Ser | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168863 | c.1750C>T | synonymous_variant | 1.0 |
PPE35 | 2170065 | p.Ala183Gly | missense_variant | 0.23 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2519071 | p.Asp319Glu | missense_variant | 0.29 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.26 |
Rv2752c | 3064823 | p.Val457Leu | missense_variant | 0.16 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.6 |
fbiD | 3339751 | p.Ala212Pro | missense_variant | 0.36 |
Rv3083 | 3448497 | c.-7T>A | upstream_gene_variant | 1.0 |
fprA | 3474439 | c.434delT | frameshift_variant | 1.0 |
whiB7 | 3568428 | c.252A>G | synonymous_variant | 0.38 |
fbiB | 3641895 | c.361C>T | synonymous_variant | 1.0 |
alr | 3840764 | c.657G>C | synonymous_variant | 1.0 |
rpoA | 3878590 | c.-83G>C | upstream_gene_variant | 0.19 |
rpoA | 3878609 | c.-102T>G | upstream_gene_variant | 0.25 |
rpoA | 3878637 | c.-130G>C | upstream_gene_variant | 0.43 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.75 |
clpC1 | 4039016 | c.1689C>T | synonymous_variant | 0.99 |
embC | 4240409 | p.Pro183Ala | missense_variant | 0.34 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246527 | p.Ala5Gly | missense_variant | 0.23 |
embB | 4248328 | c.1815G>C | synonymous_variant | 0.24 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |