Run ID: SRR7341681
Sample name:
Date: 04-04-2023 19:00:31
Number of reads: 972976
Percentage reads mapped: 99.67
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 | 761106 | p.Met434Leu | missense_variant | 1.0 | rifampicin |
rpoB | 761139 | p.His445Asn | missense_variant | 1.0 | rifampicin |
rrs | 1473246 | n.1401A>G | non_coding_transcript_exon_variant | 1.0 | kanamycin, capreomycin, aminoglycosides, amikacin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289192 | p.Gly17Asp | missense_variant | 1.0 | pyrazinamide |
embB | 4247429 | p.Met306Leu | missense_variant | 1.0 | ethambutol |
gid | 4407796 | p.Ser136* | stop_gained | 1.0 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7694 | p.Glu131Asp | missense_variant | 0.15 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.38 |
mshA | 576111 | p.Ala255Gly | missense_variant | 0.22 |
ccsA | 619785 | c.-106G>C | upstream_gene_variant | 1.0 |
rpoB | 761167 | p.Pro454Leu | missense_variant | 1.0 |
rpoB | 761503 | p.Pro566Arg | missense_variant | 0.11 |
mmpL5 | 775626 | p.Trp952Leu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776523 | p.Leu653Gln | missense_variant | 0.23 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1476140 | n.2483T>A | non_coding_transcript_exon_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102990 | p.Val18Ala | missense_variant | 1.0 |
ndh | 2103066 | c.-24T>A | upstream_gene_variant | 0.1 |
PPE35 | 2169840 | p.Gly258Asp | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pepQ | 2860153 | p.Glu89Ala | missense_variant | 0.19 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.19 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3086868 | c.51_54dupCATC | frameshift_variant | 1.0 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 1.0 |
alr | 3841608 | c.-188A>G | upstream_gene_variant | 1.0 |
clpC1 | 4040522 | c.183T>C | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.33 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.43 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.43 |
embB | 4247028 | p.Leu172Arg | missense_variant | 0.2 |
aftB | 4268041 | c.796C>T | synonymous_variant | 1.0 |
ubiA | 4269671 | p.Val55Leu | missense_variant | 1.0 |
ethA | 4326019 | c.1455C>T | synonymous_variant | 1.0 |
ethA | 4326267 | p.Cys403Arg | missense_variant | 0.92 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |