Run ID: ERR2514771
Sample name:
Date: 31-03-2023 20:33:09
Number of reads: 636793
Percentage reads mapped: 97.55
Strain: lineage4.8.2
Drug-resistance: RR-TB
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 |
lineage4.8.2 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761140 | p.His445Leu | missense_variant | 0.14 | rifampicin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5701 | c.466dupC | frameshift_variant | 0.11 |
gyrA | 6955 | c.-347G>A | upstream_gene_variant | 0.18 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 8135 | c.834C>T | synonymous_variant | 1.0 |
gyrA | 8558 | c.1257C>A | synonymous_variant | 0.1 |
fgd1 | 491696 | p.Leu305Pro | missense_variant | 0.13 |
rpoB | 759620 | c.-187A>C | upstream_gene_variant | 0.29 |
rpoB | 760638 | p.Gly278Cys | missense_variant | 0.12 |
rpoB | 760973 | c.1167G>C | synonymous_variant | 0.14 |
rpoB | 760982 | c.1176G>C | synonymous_variant | 0.15 |
rpoB | 760988 | c.1182C>G | synonymous_variant | 0.17 |
rpoB | 760991 | c.1185G>C | synonymous_variant | 0.17 |
rpoB | 760997 | c.1191G>C | synonymous_variant | 0.18 |
rpoB | 761006 | c.1200C>G | synonymous_variant | 0.17 |
rpoB | 761014 | p.Val403Ala | missense_variant | 0.17 |
rpoB | 761021 | c.1215G>C | synonymous_variant | 0.17 |
rpoB | 761027 | c.1221A>C | synonymous_variant | 0.15 |
rpoB | 761034 | p.Thr410Ser | missense_variant | 0.13 |
rpoB | 761051 | c.1245G>C | synonymous_variant | 0.12 |
rpoB | 761058 | p.Val418Asn | missense_variant | 0.12 |
rpoB | 761064 | p.Ala420Thr | missense_variant | 0.12 |
rpoC | 764459 | p.Glu364* | stop_gained | 0.11 |
rpoC | 766716 | p.Ala1116Val | missense_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776699 | c.1782C>A | synonymous_variant | 0.1 |
mmpL5 | 776891 | p.Gln530His | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
embR | 1416674 | p.Leu225Pro | missense_variant | 0.13 |
atpE | 1460872 | c.-173G>T | upstream_gene_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1475933 | n.2276C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476287 | n.2630A>G | non_coding_transcript_exon_variant | 0.15 |
rpsA | 1834335 | c.795delC | frameshift_variant | 0.11 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168149 | p.Pro822Ser | missense_variant | 1.0 |
PPE35 | 2168258 | c.2355G>A | synonymous_variant | 0.14 |
PPE35 | 2170484 | c.129C>T | synonymous_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289913 | c.-672T>A | upstream_gene_variant | 0.13 |
kasA | 2519062 | c.948T>G | synonymous_variant | 0.1 |
ahpC | 2725972 | c.-221A>G | upstream_gene_variant | 0.11 |
ribD | 2986773 | c.-66G>T | upstream_gene_variant | 0.1 |
ald | 3086987 | p.Gln56His | missense_variant | 0.12 |
ald | 3086997 | p.Thr60Gly | missense_variant | 0.13 |
whiB7 | 3568782 | c.-106_-104delACA | upstream_gene_variant | 0.12 |
whiB7 | 3568788 | c.-109G>T | upstream_gene_variant | 0.12 |
whiB7 | 3568789 | c.-110A>C | upstream_gene_variant | 0.18 |
whiB7 | 3568873 | c.-194G>T | upstream_gene_variant | 0.12 |
Rv3236c | 3612863 | p.Ser85Ile | missense_variant | 0.13 |
fbiA | 3641477 | p.Asp312Val | missense_variant | 0.11 |
fbiB | 3641640 | p.Ala36Thr | missense_variant | 0.1 |
rpoA | 3877713 | p.Lys265Asn | missense_variant | 0.11 |
clpC1 | 4039729 | p.Asp326Asn | missense_variant | 0.82 |
clpC1 | 4039730 | c.975C>G | synonymous_variant | 0.18 |
clpC1 | 4039782 | p.Leu308Gln | missense_variant | 0.1 |
embC | 4241979 | p.Ser706Phe | missense_variant | 0.11 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4245848 | c.-666C>A | upstream_gene_variant | 0.15 |
aftB | 4268584 | p.Ala85Thr | missense_variant | 0.15 |
ethA | 4326638 | p.Arg279Gln | missense_variant | 0.11 |
ethR | 4328102 | c.555_560delGTCATT | disruptive_inframe_deletion | 0.17 |
ethR | 4328111 | p.Ala188Gly | missense_variant | 0.17 |
ethR | 4328113 | c.565_566insAATGAC | stop_gained&disruptive_inframe_insertion | 0.18 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407968 | c.235T>C | synonymous_variant | 0.12 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |