Run ID: ERR5987249
Sample name:
Date: 02-04-2023 01:28:34
Number of reads: 1117240
Percentage reads mapped: 67.56
Strain: lineage4.3.2
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 |
lineage4.3.2 | Euro-American (LAM) | LAM3 | 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 |
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 | 762899 | c.-471G>C | upstream_gene_variant | 0.22 |
rpoC | 762923 | c.-447C>G | upstream_gene_variant | 0.23 |
rpoB | 762925 | p.Thr1040Ile | missense_variant | 0.23 |
rpoC | 762929 | c.-441G>C | upstream_gene_variant | 0.23 |
rpoB | 762939 | p.Met1045Leu | missense_variant | 0.22 |
rpoB | 762942 | p.Ile1046Val | missense_variant | 0.22 |
rpoC | 762965 | c.-405T>C | upstream_gene_variant | 0.22 |
rpoC | 762980 | c.-390T>C | upstream_gene_variant | 0.2 |
rpoC | 762983 | c.-387C>T | upstream_gene_variant | 0.22 |
rpoC | 762989 | c.-381G>C | upstream_gene_variant | 0.22 |
rpoC | 762998 | c.-372G>A | upstream_gene_variant | 0.19 |
rpoB | 763005 | p.Cys1067Val | missense_variant | 0.19 |
rpoC | 763013 | c.-357C>T | upstream_gene_variant | 0.18 |
rpoB | 763014 | p.Met1070Leu | missense_variant | 0.17 |
rpoB | 763017 | p.Gln1071Glu | missense_variant | 0.17 |
rpoC | 763028 | c.-342T>C | upstream_gene_variant | 0.17 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 0.17 |
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 |
rrs | 1472337 | n.492C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.1 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.19 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1476336 | n.2679C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476339 | n.2682G>A | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476356 | n.2699C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476384 | n.2727G>A | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476411 | n.2754G>A | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476442 | n.2785T>A | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476443 | n.2786G>T | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476455 | n.2798C>A | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476456 | n.2799A>T | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476463 | n.2806C>T | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476470 | n.2813C>T | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476501 | n.2844C>T | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476512 | n.2855C>T | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476517 | n.2860C>T | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476519 | n.2862C>G | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476521 | n.2864C>T | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476524 | n.2867C>T | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476525 | n.2868A>C | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476529 | n.2872A>G | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476536 | n.2879G>A | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476537 | n.2880A>G | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476538 | n.2881A>G | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476540 | n.2883C>T | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476567 | n.2910C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476572 | n.2915G>A | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476573 | n.2916A>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.13 |
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 |
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 |