Run ID: SRR22424774
Sample name:
Date: 04-04-2023 04:11:08
Number of reads: 975109
Percentage reads mapped: 99.62
Strain: lineage4.3.3
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 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.3 | Euro-American (LAM) | LAM;T | RD115 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761109 | p.Asp435Phe | missense_variant | 1.0 | rifampicin |
rpsL | 781822 | p.Lys88Arg | missense_variant | 1.0 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8040 | p.Gly247Ser | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoB | 760575 | c.770delA | frameshift_variant | 0.15 |
rpoB | 760790 | c.984C>T | synonymous_variant | 0.12 |
rpoB | 762633 | p.Ala943Thr | missense_variant | 1.0 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777395 | c.1086C>T | synonymous_variant | 0.11 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1304840 | p.Glu637Gly | missense_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1473356 | n.1511A>G | non_coding_transcript_exon_variant | 0.1 |
rrl | 1474369 | n.714_715delCC | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474602 | n.945C>A | non_coding_transcript_exon_variant | 0.13 |
rpsA | 1833939 | p.Val133Gly | missense_variant | 1.0 |
rpsA | 1834845 | c.1313_1315delCCG | disruptive_inframe_deletion | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2170095 | p.Arg173Gln | missense_variant | 0.13 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289694 | c.-453G>T | upstream_gene_variant | 0.14 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 1.0 |
kasA | 2519041 | p.Asn309Lys | missense_variant | 0.13 |
folC | 2747281 | c.318A>G | synonymous_variant | 0.14 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
thyA | 3074283 | c.188dupT | frameshift_variant | 0.11 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087343 | p.Gly175Val | missense_variant | 0.12 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fbiB | 3641812 | p.Leu93Ser | missense_variant | 0.11 |
rpoA | 3878455 | c.52dupC | frameshift_variant | 0.17 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4040213 | c.492T>A | synonymous_variant | 0.13 |
panD | 4044110 | p.Tyr58Asp | missense_variant | 0.1 |
embC | 4242182 | p.Ala774Ser | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242737 | c.2878delC | frameshift_variant | 0.11 |
embA | 4244883 | c.1651C>A | synonymous_variant | 0.15 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |