Run ID: SRR7645974
Sample name:
Date: 04-04-2023 20:01:27
Number of reads: 2428273
Percentage reads mapped: 96.36
Strain: lineage4.3.4.1
Drug-resistance: Other
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 |
lineage4.3.4 | Euro-American (LAM) | LAM | RD174 | 1.0 |
lineage4.3.4.1 | Euro-American (LAM) | LAM1;LAM2 | RD174 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1473247 | n.1402C>A | non_coding_transcript_exon_variant | 0.17 | kanamycin, capreomycin, aminoglycosides, amikacin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoC | 763551 | p.Tyr61Ser | missense_variant | 0.1 |
rpoC | 763783 | c.414G>A | synonymous_variant | 1.0 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
rpoC | 765325 | c.1956C>T | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472558 | n.713G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472569 | n.724G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473066 | n.1221A>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473147 | n.1302G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.17 |
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.14 |
rrs | 1473283 | n.1438T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1473301 | n.1456T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474864 | n.1207C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475869 | n.2212C>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475881 | n.2224T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475883 | n.2226A>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475884 | n.2227A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475898 | n.2241A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475916 | n.2259C>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476194 | n.2537A>G | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476200 | n.2543A>T | non_coding_transcript_exon_variant | 0.1 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168147 | c.2466A>G | synonymous_variant | 1.0 |
Rv1979c | 2223123 | c.42G>A | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2519332 | c.1218C>A | synonymous_variant | 0.18 |
folC | 2746540 | c.1059G>A | synonymous_variant | 1.0 |
ribD | 2987307 | p.Ala157Pro | missense_variant | 0.13 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.11 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612009 | p.Ala370Thr | missense_variant | 1.0 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 0.98 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338550 | c.-29A>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |