Run ID: SRR22528547
Sample name:
Date: 04-04-2023 04:18:31
Number of reads: 676374
Percentage reads mapped: 99.75
Strain: lineage4.4.1.1
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.4 | Euro-American | S;T | None | 1.0 |
lineage4.4.1 | Euro-American (S-type) | S;T | None | 1.0 |
lineage4.4.1.1 | Euro-American | S;Orphans | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 6748 | c.-554G>A | upstream_gene_variant | 0.11 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8116 | p.Thr272Ile | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491002 | p.Val74Met | missense_variant | 0.11 |
mshA | 576113 | c.769delG | frameshift_variant | 0.18 |
rpoB | 761528 | p.Asp574Glu | missense_variant | 1.0 |
rpoC | 762590 | c.-780C>T | upstream_gene_variant | 0.11 |
rpoB | 763212 | p.Gly1136Ser | missense_variant | 0.11 |
rpoC | 764537 | p.Pro390Thr | missense_variant | 0.14 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 778282 | c.198delC | frameshift_variant | 0.11 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303820 | p.Ala297Asp | missense_variant | 0.11 |
fbiC | 1305203 | c.2277dupC | frameshift_variant | 0.15 |
fbiC | 1305458 | c.2530delG | frameshift_variant | 0.1 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472422 | n.577T>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476582 | n.2925T>C | non_coding_transcript_exon_variant | 0.2 |
fabG1 | 1673845 | p.Ile136Val | missense_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102990 | p.Val18Ala | missense_variant | 1.0 |
katG | 2154177 | c.1935G>A | synonymous_variant | 0.11 |
PPE35 | 2167769 | c.2844C>T | synonymous_variant | 0.14 |
PPE35 | 2169669 | p.Gly315Val | missense_variant | 0.14 |
PPE35 | 2169840 | p.Gly258Asp | missense_variant | 1.0 |
Rv1979c | 2222724 | c.441G>A | synonymous_variant | 0.15 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2290117 | c.-876C>A | upstream_gene_variant | 0.12 |
eis | 2714456 | p.Gly293Ser | missense_variant | 0.12 |
eis | 2714889 | c.444C>T | synonymous_variant | 0.12 |
folC | 2746923 | p.Gly226Ser | missense_variant | 0.14 |
folC | 2747594 | p.Asn2Ile | missense_variant | 0.12 |
Rv2752c | 3064660 | c.1531delG | frameshift_variant | 0.12 |
Rv2752c | 3064728 | c.1464T>A | synonymous_variant | 0.17 |
Rv2752c | 3066261 | c.-70G>A | upstream_gene_variant | 0.11 |
thyA | 3074495 | c.-24C>T | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448384 | c.-119delC | upstream_gene_variant | 0.15 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
fprA | 3473976 | c.-31C>T | upstream_gene_variant | 0.12 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 1.0 |
fbiB | 3641612 | c.78C>A | synonymous_variant | 0.11 |
rpoA | 3878417 | p.Gly31Ser | missense_variant | 0.18 |
rpoA | 3878630 | c.-123G>C | upstream_gene_variant | 0.17 |
embC | 4240557 | p.Ala232Val | missense_variant | 0.11 |
embC | 4241596 | c.1734G>T | synonymous_variant | 0.15 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4244970 | c.1738C>T | synonymous_variant | 1.0 |
embB | 4248437 | p.Thr642Ala | missense_variant | 1.0 |
ethR | 4326703 | c.-846T>C | upstream_gene_variant | 1.0 |
ethR | 4327822 | p.Glu92Lys | missense_variant | 0.13 |
whiB6 | 4338514 | p.Tyr3Cys | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |