Run ID: ERR2027297
Sample name:
Date: 31-03-2023 15:42:25
Number of reads: 3878798
Percentage reads mapped: 99.64
Strain: lineage4.8
Drug-resistance: RR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761089 | p.Ser428Ile | missense_variant | 1.0 | rifampicin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
rpoC | 766085 | p.Pro906Ala | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
atpE | 1460992 | c.-53A>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474418 | n.761C>T | non_coding_transcript_exon_variant | 0.1 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474831 | n.1174A>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474837 | n.1180A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474852 | n.1195T>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1474864 | n.1207C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474883 | n.1226T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474896 | n.1239A>T | non_coding_transcript_exon_variant | 0.11 |
rrl | 1474901 | n.1244A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474904 | n.1247G>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474905 | n.1248T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474913 | n.1256T>C | non_coding_transcript_exon_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2221897 | p.Val423Ala | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
Rv3083 | 3448497 | c.-7T>A | upstream_gene_variant | 1.0 |
Rv3083 | 3448500 | c.-4A>G | upstream_gene_variant | 1.0 |
Rv3083 | 3448501 | c.-3G>T | upstream_gene_variant | 0.67 |
alr | 3840764 | c.657G>C | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |