Run ID: SRR4033767
Sample name:
Date: 04-04-2023 06:19:08
Number of reads: 1002629
Percentage reads mapped: 99.63
Strain: lineage4.3.2.1
Drug-resistance: Sensitive
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 |
lineage4.3.2.1 | Euro-American (LAM) | LAM3 | RD761 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5520 | p.Pro94Leu | missense_variant | 1.0 |
gyrA | 7222 | c.-80C>T | upstream_gene_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8327 | c.1026C>A | synonymous_variant | 0.15 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491200 | p.Arg140Gly | missense_variant | 0.2 |
rpoB | 761852 | c.2046C>A | synonymous_variant | 0.12 |
rpoC | 763916 | p.Glu183* | stop_gained | 0.12 |
rpoC | 764534 | c.1167delG | frameshift_variant | 0.15 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775665 | p.Trp939Leu | missense_variant | 0.14 |
mmpL5 | 777569 | c.912C>T | synonymous_variant | 0.12 |
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 | 1475287 | n.1630G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475363 | n.1706C>A | non_coding_transcript_exon_variant | 0.33 |
rrl | 1475454 | n.1797G>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1475964 | n.2307G>A | non_coding_transcript_exon_variant | 0.12 |
rpsA | 1834853 | p.Ala438Thr | missense_variant | 0.17 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2155070 | p.Ala348Ser | missense_variant | 0.11 |
PPE35 | 2167680 | p.Ser978* | stop_gained | 0.13 |
PPE35 | 2168139 | p.Ala825Val | missense_variant | 0.11 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.27 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2519061 | p.Pro316His | missense_variant | 0.18 |
pepQ | 2859905 | p.Val172Leu | missense_variant | 0.11 |
Rv2752c | 3064552 | p.Arg547Pro | missense_variant | 0.15 |
Rv2752c | 3065823 | c.368delC | frameshift_variant | 0.2 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
thyA | 3073881 | c.591C>T | synonymous_variant | 0.25 |
thyA | 3074035 | p.Cys146Phe | missense_variant | 0.11 |
thyA | 3074069 | p.Val135Phe | missense_variant | 0.11 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3449327 | p.Arg275His | missense_variant | 0.13 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3613150 | c.-34G>T | upstream_gene_variant | 0.12 |
rpoA | 3878042 | p.Gly156Cys | missense_variant | 0.12 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
aftB | 4267787 | c.1050G>T | synonymous_variant | 0.12 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407553 | p.Arg217Gln | missense_variant | 0.12 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |