Run ID: SRR5007183
Sample name:
Date: 04-04-2023 07:52:05
Number of reads: 3081617
Percentage reads mapped: 98.11
Strain: lineage4.3.4.1
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 |
lineage4.3 | 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 |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288839 | p.Thr135Pro | missense_variant | 1.0 | pyrazinamide |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
gid | 4408087 | c.115delC | frameshift_variant | 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 | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoC | 764822 | p.Asp485Tyr | missense_variant | 1.0 |
rpoC | 764995 | c.1626C>G | 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 |
rrl | 1474116 | n.459G>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474709 | n.1052G>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474760 | n.1103A>G | non_coding_transcript_exon_variant | 0.1 |
rrl | 1474779 | n.1122G>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474782 | n.1125G>A | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.11 |
Rv1979c | 2222854 | p.Ile104Thr | missense_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 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4039991 | c.714G>A | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
ethA | 4328312 | c.-839C>G | upstream_gene_variant | 1.0 |
whiB6 | 4338365 | p.Cys53Gly | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |