TB-Profiler result

Run: ERR5979538
Summary

Run ID: ERR5979538

Sample name:

Date: 02-04-2023 01:12:02

Number of reads: 5753114

Percentage reads mapped: 99.64

Strain: lineage4.8;lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 0.08
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.91
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.1
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 491591 p.Lys270Met missense_variant 0.11
mshA 575891 p.Ala182Thr missense_variant 0.94
mshA 576108 p.Ala254Gly missense_variant 0.26
rpoB 760115 c.309C>T synonymous_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>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 0.87
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 0.11
Rv3083 3448497 c.-7T>A upstream_gene_variant 0.29
Rv3083 3448500 c.-4A>G upstream_gene_variant 0.24
Rv3083 3448501 c.-3G>T upstream_gene_variant 0.24
Rv3083 3449659 p.Trp386Arg missense_variant 0.13
Rv3083 3449770 c.1272_1273delCG frameshift_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242928 c.-305A>G upstream_gene_variant 0.94
embB 4246584 p.Arg24Pro missense_variant 0.17
embB 4247595 p.Cys361Ser missense_variant 0.9
aftB 4268040 p.Leu266Pro missense_variant 0.91
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0