TB-Profiler result

Run: ERR9285802
Summary

Run ID: ERR9285802

Sample name:

Date: 02-04-2023 11:39:57

Number of reads: 4655673

Percentage reads mapped: 99.64

Strain: lineage4.8;lineage4.4.1.1

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.9
lineage4.4 Euro-American S;T None 0.07
lineage4.4.1 Euro-American (S-type) S;T None 0.11
lineage4.4.1.1 Euro-American S;Orphans None 0.08
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 7585 p.Ser95Thr missense_variant 0.16
mshA 576108 p.Ala254Gly missense_variant 0.2
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 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 0.11
ndh 2103202 c.-160C>A upstream_gene_variant 0.91
PPE35 2168149 p.Pro822Ser missense_variant 0.86
PPE35 2169840 p.Gly258Asp missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746923 p.Gly226Ser missense_variant 0.14
Rv3083 3448497 c.-7T>A upstream_gene_variant 0.22
Rv3083 3448608 c.105G>A synonymous_variant 1.0
Rv3083 3448620 c.117G>A synonymous_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243692 p.Gly154Ser missense_variant 0.12
embB 4247395 c.882C>T synonymous_variant 0.87
ethA 4328252 c.-779T>G upstream_gene_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0