TB-Profiler result

Run: ERR2229089
Summary

Run ID: ERR2229089

Sample name:

Date: 18-08-2022 11:01:01

Number of reads: 956686

Percentage reads mapped: 99.5

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
gyrA 8694 p.Leu465Met missense_variant 0.12
mshA 576108 p.Ala254Gly missense_variant 0.23
rpoC 766282 p.Ser971Arg missense_variant 0.13
mmpR5 778817 c.-173G>T upstream_gene_variant 0.18
rpsL 781372 c.-188T>A upstream_gene_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303713 c.783C>G synonymous_variant 0.17
fbiC 1303747 p.Thr273Ala missense_variant 1.0
atpE 1460876 c.-169G>T upstream_gene_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475930 n.2273G>T non_coding_transcript_exon_variant 0.12
rrl 1475940 n.2283C>A non_coding_transcript_exon_variant 0.12
rrl 1476070 n.2413A>T non_coding_transcript_exon_variant 0.15
fabG1 1673346 c.-94C>G upstream_gene_variant 0.18
fabG1 1673349 c.-91G>C upstream_gene_variant 0.18
fabG1 1673357 c.-83G>A upstream_gene_variant 0.11
fabG1 1673361 c.-79C>G upstream_gene_variant 0.11
fabG1 1673380 c.-60C>G upstream_gene_variant 0.23
fabG1 1673557 p.His40Asn missense_variant 0.17
rpsA 1833392 c.-150C>G upstream_gene_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153970 p.Asp714Glu missense_variant 0.11
katG 2155293 c.819T>C synonymous_variant 0.18
pncA 2289848 c.-607G>C upstream_gene_variant 0.17
kasA 2518606 c.492G>C synonymous_variant 0.18
kasA 2518609 p.Met165Ile missense_variant 0.18
folC 2746499 p.Ala367Val missense_variant 0.18
fbiD 3339490 p.Leu125Ile missense_variant 0.13
fbiB 3641861 p.Asp109Glu missense_variant 0.15
alr 3840368 c.1052delG frameshift_variant 0.15
alr 3840604 p.Pro273Ser missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247913 p.Val467Glu missense_variant 0.13