TB-Profiler result

Run: ERR1950010
Summary

Run ID: ERR1950010

Sample name:

Date: 31-03-2023 15:37:24

Number of reads: 835848

Percentage reads mapped: 99.67

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
rpoB 760026 p.Val74Leu missense_variant 0.11
rpoB 760386 p.His194Asn missense_variant 0.1
rpoB 762177 p.Arg791Cys missense_variant 0.11
rpoB 762448 p.Gly881Ala missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778907 c.-428delG upstream_gene_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303212 c.282C>A synonymous_variant 0.11
fbiC 1303747 p.Thr273Ala missense_variant 1.0
embR 1416518 p.Leu277Arg missense_variant 0.21
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473634 n.-24A>T upstream_gene_variant 0.17
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
inhA 1673622 c.-580C>T upstream_gene_variant 0.15
inhA 1674976 p.Tyr259His missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169741 p.Asn291Ser missense_variant 0.11
Rv1979c 2222068 p.Ala366Val missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288686 p.Ser186Pro missense_variant 0.11
eis 2714160 c.1173C>G synonymous_variant 0.12
folC 2747554 c.45C>T synonymous_variant 0.11
pepQ 2860231 p.Gln63Arg missense_variant 0.1
ribD 2987265 p.Leu143Ile missense_variant 0.1
Rv2752c 3064639 p.Leu518* stop_gained 0.14
Rv2752c 3065293 p.Val300Ala missense_variant 0.12
ald 3086987 p.Gln56His missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4246166 p.Leu978Phe missense_variant 0.1
embB 4246794 c.284delG frameshift_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0