Run ID: SRR16087989
Sample name:
Date: 03-04-2023 16:03:32
Number of reads: 3665642
Percentage reads mapped: 99.68
Strain: lineage4.8;lineage2.2
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage2 | East-Asian | Beijing | RD105 | 0.05 |
lineage4 | Euro-American | LAM;T;S;X;H | None | 0.96 |
lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 0.06 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 0.92 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 0.11 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 0.1 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.21 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 0.12 |
rpsL | 781395 | c.-165T>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 | 0.86 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 0.17 |
PPE35 | 2168149 | p.Pro822Ser | missense_variant | 0.93 |
PPE35 | 2170065 | p.Ala183Gly | missense_variant | 0.21 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.52 |
Rv3083 | 3448497 | c.-7T>A | upstream_gene_variant | 0.22 |
Rv3083 | 3448500 | c.-4A>G | upstream_gene_variant | 0.12 |
Rv3083 | 3448501 | c.-3G>T | upstream_gene_variant | 0.12 |
Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 0.11 |
rpoA | 3878613 | c.-106A>C | upstream_gene_variant | 0.23 |
rpoA | 3878618 | c.-111A>C | upstream_gene_variant | 0.2 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.39 |
embC | 4240409 | p.Pro183Ala | missense_variant | 0.16 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246584 | p.Arg24Pro | missense_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 |