TB-Profiler result

Run: ERR2229795

Summary

Run ID: ERR2229795

Sample name:

Date: 31-03-2023 17:35:53

Number of reads: 688788

Percentage reads mapped: 99.59

Strain: lineage4.8

Drug-resistance: Sensitive


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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
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
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrA 7362 p.Glu21Gln missense_variant 1.0
fgd1 490707 c.-76G>T upstream_gene_variant 0.12
mshA 575264 c.-84C>T upstream_gene_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775869 p.Ile871Asn missense_variant 0.15
mmpL5 776017 p.Ile822Leu missense_variant 0.13
mmpL5 776493 p.Gln663Arg missense_variant 0.2
mmpL5 777255 p.Pro409Leu missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781530 c.-30G>A upstream_gene_variant 0.12
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304462 p.Asp511Gly missense_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101893 p.Pro384Ser missense_variant 0.11
PPE35 2167745 p.Thr956Arg missense_variant 0.25
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2170392 p.Gly74Ala missense_variant 0.12
PPE35 2170400 c.213G>C synonymous_variant 0.12
Rv1979c 2222707 p.Leu153His missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3064667 p.Arg509Ser missense_variant 0.25
thyA 3074201 p.Gly91Trp missense_variant 0.13
thyA 3074571 c.-100T>C upstream_gene_variant 0.12
thyA 3074579 c.-108G>A upstream_gene_variant 0.12
thyA 3074580 c.-109T>C upstream_gene_variant 0.12
clpC1 4040582 c.123G>T synonymous_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246556 p.Ala15Pro missense_variant 0.11
embB 4246563 p.Leu17Trp missense_variant 0.12
embB 4246567 c.54G>T synonymous_variant 0.12
embB 4247023 c.510G>A synonymous_variant 0.12
aftB 4267525 p.Val438Met missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0