TB-Profiler result

Run: ERR2228901
Summary

Run ID: ERR2228901

Sample name:

Date: 31-03-2023 16:25:20

Number of reads: 1349495

Percentage reads mapped: 99.61

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 491357 p.Phe192Tyr missense_variant 0.15
fgd1 491456 p.Ile225Ser missense_variant 0.12
mshA 575596 c.249C>A synonymous_variant 0.12
mshA 576108 p.Ala254Gly missense_variant 0.17
ccsA 620122 c.236delG frameshift_variant 0.22
mmpL5 775588 c.2893T>A stop_lost&splice_region_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775686 p.Leu932His missense_variant 0.12
mmpL5 775693 p.Ala930Ser missense_variant 0.12
mmpL5 775813 p.Phe890Val missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304425 p.Leu499Met missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472801 n.956G>A non_coding_transcript_exon_variant 0.5
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167868 c.2745A>C synonymous_variant 0.11
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.11
PPE35 2170053 p.Thr187Ser missense_variant 0.1
PPE35 2170147 p.Ser156Ala missense_variant 0.15
PPE35 2170392 p.Gly74Ala missense_variant 0.15
PPE35 2170415 c.198A>G synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518762 p.Met216Ile missense_variant 0.12
kasA 2519140 c.1026G>C synonymous_variant 0.17
kasA 2519143 c.1029G>C synonymous_variant 0.15
eis 2715018 c.315C>T synonymous_variant 0.11
folC 2746221 p.Ala460Ser missense_variant 0.14
folC 2746440 p.Val387Met missense_variant 0.15
folC 2746462 c.1137C>T synonymous_variant 0.13
thyX 3067616 c.330C>T synonymous_variant 0.18
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fprA 3474979 p.Arg325Cys missense_variant 0.12
fprA 3474996 c.990C>A synonymous_variant 0.13
Rv3236c 3612123 p.Ala332Ser missense_variant 0.17
alr 3841546 c.-126C>A upstream_gene_variant 0.17
clpC1 4039645 p.His354Asp missense_variant 0.19
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244184 p.Ser318Leu missense_variant 0.12
embA 4244780 c.1548C>G synonymous_variant 0.12
embA 4245943 p.Arg904Leu missense_variant 0.15
aftB 4268776 c.60delG frameshift_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0