Run ID: ERR4407473
Sample name:
Date: 01-04-2023 05:45:35
Number of reads: 279736
Percentage reads mapped: 99.52
Strain: lineage4.3.4
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 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
katG | 2155433 | c.678delG | frameshift_variant | 0.18 | isoniazid |
embB | 4247730 | p.Gly406Ala | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5156 | c.-84G>A | upstream_gene_variant | 0.1 |
gyrB | 5269 | c.30C>T | synonymous_variant | 0.15 |
gyrB | 5632 | c.393A>G | synonymous_variant | 1.0 |
gyrB | 6059 | p.Ser274Gly | missense_variant | 1.0 |
gyrA | 6817 | c.-485G>A | upstream_gene_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 |
fgd1 | 491050 | p.Phe90Leu | missense_variant | 0.12 |
rpoB | 759663 | c.-144G>A | upstream_gene_variant | 0.33 |
rpoB | 761152 | p.Leu449Gln | missense_variant | 0.17 |
rpoB | 761340 | p.Lys512Glu | missense_variant | 0.18 |
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 |
atpE | 1460913 | c.-132G>C | upstream_gene_variant | 0.25 |
atpE | 1461143 | c.99C>T | synonymous_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472318 | n.473A>G | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472623 | n.778A>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472647 | n.802C>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472673 | n.828T>G | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472675 | n.830T>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472677 | n.832C>A | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472682 | n.837T>A | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472683 | n.838T>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472686 | n.841G>A | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472687 | n.842A>T | non_coding_transcript_exon_variant | 0.1 |
rrs | 1472707 | n.862A>T | non_coding_transcript_exon_variant | 0.11 |
rrs | 1472714 | n.872_873delCC | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472934 | n.1089C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1473440 | n.-217delT | upstream_gene_variant | 0.11 |
rrl | 1474364 | n.707G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474921 | n.1268dupG | non_coding_transcript_exon_variant | 0.22 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102072 | p.Ala324Val | missense_variant | 0.1 |
katG | 2155024 | p.Thr363Ile | missense_variant | 0.15 |
PPE35 | 2168717 | c.1896G>A | synonymous_variant | 0.15 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pepQ | 2859431 | c.988T>C | synonymous_variant | 0.1 |
pepQ | 2860317 | c.102A>G | synonymous_variant | 0.12 |
Rv2752c | 3064721 | p.His491Tyr | missense_variant | 0.5 |
Rv2752c | 3064928 | c.1264T>C | synonymous_variant | 0.12 |
Rv2752c | 3065188 | p.Val335Ala | missense_variant | 0.15 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339537 | c.420C>A | synonymous_variant | 0.14 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474672 | p.Asp222Glu | missense_variant | 0.12 |
Rv3236c | 3612009 | p.Ala370Thr | missense_variant | 1.0 |
Rv3236c | 3612472 | c.645C>T | synonymous_variant | 0.22 |
fbiB | 3642320 | c.786C>A | synonymous_variant | 0.2 |
alr | 3840444 | p.Leu326Pro | missense_variant | 0.1 |
alr | 3841470 | c.-50G>A | upstream_gene_variant | 0.1 |
rpoA | 3877508 | p.Gly334Cys | missense_variant | 0.11 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4040030 | c.675C>A | synonymous_variant | 0.12 |
embC | 4239763 | c.-100C>T | upstream_gene_variant | 1.0 |
embC | 4240838 | c.978delG | frameshift_variant | 0.11 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243487 | c.255C>T | synonymous_variant | 0.13 |
embA | 4244907 | p.Gly559Ser | missense_variant | 0.2 |
embA | 4246111 | p.Arg960Gln | missense_variant | 0.11 |
embA | 4246480 | p.Gly1083Asp | missense_variant | 0.18 |
embB | 4247176 | c.663G>A | synonymous_variant | 0.17 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407974 | p.Val77Met | missense_variant | 0.12 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |