Run ID: SRR10315714
Sample name:
Date: 02-04-2023 17:16:53
Number of reads: 6362250
Percentage reads mapped: 97.61
Strain: lineage4.4.1.1.1
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 |
lineage4.4 | Euro-American | S;T | None | 1.0 |
lineage4.4.1 | Euro-American (S-type) | S;T | None | 1.0 |
lineage4.4.1.1 | Euro-American | S;Orphans | None | 1.0 |
lineage4.4.1.1.1 | Euro-American | S;Orphans | None | 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 | 2289069 | p.Phe58Ser | missense_variant | 1.0 | pyrazinamide |
embB | 4247730 | p.Gly406Ala | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5239 | c.-1C>G | 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 |
mshA | 575719 | c.372C>T | synonymous_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.29 |
rpoC | 764944 | p.His525Gln | missense_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 | 1472209 | n.364T>C | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472420 | n.575G>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472992 | n.1147A>G | non_coding_transcript_exon_variant | 0.1 |
rrl | 1474782 | n.1125G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474801 | n.1144G>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474802 | n.1145T>C | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474864 | n.1207C>T | non_coding_transcript_exon_variant | 0.18 |
rrl | 1475101 | n.1444T>A | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475881 | n.2224T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475898 | n.2241A>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475899 | n.2242G>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1475916 | n.2259C>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.2 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.16 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102990 | p.Val18Ala | missense_variant | 1.0 |
PPE35 | 2169840 | p.Gly258Asp | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.19 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.12 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |