Run ID: SRR6044937
Sample name:
Date: 04-04-2023 11:50:03
Number of reads: 2654539
Percentage reads mapped: 94.72
Strain: lineage4.3.4.2.1
Drug-resistance: HR-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 |
lineage4.3.4 | Euro-American (LAM) | LAM | RD174 | 1.0 |
lineage4.3.4.2 | Euro-American (LAM) | LAM1;LAM4;LAM11 | RD174 | 1.0 |
lineage4.3.4.2.1 | Euro-American (LAM) | LAM11 | RD174 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.12 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6140 | p.Val301Leu | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoB | 761152 | p.Leu449Gln | missense_variant | 0.13 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776532 | p.Ala650Val | missense_variant | 0.99 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475707 | n.2050T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1475713 | n.2056C>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1475716 | n.2059A>G | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476310 | n.2653G>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.15 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
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 |
alr | 3840719 | c.702A>G | synonymous_variant | 1.0 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |