TB-Profiler result

Run: ERR4820164
Summary

Run ID: ERR4820164

Sample name:

Date: 01-04-2023 16:31:17

Number of reads: 2640786

Percentage reads mapped: 99.59

Strain: lineage4.8;lineage4.6.2.2

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
lineage4.6 Euro-American T;LAM None 0.71
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.34
lineage4.6.2 Euro-American T;LAM RD726 0.71
lineage4.6.2.2 Euro-American (Cameroon) LAM10-CAM RD726 0.68
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 0.74
gyrA 9304 p.Gly668Asp missense_variant 0.63
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778298 c.-692C>T upstream_gene_variant 0.74
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302966 c.36G>A synonymous_variant 0.27
fbiC 1304841 c.1911G>A synonymous_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 0.4
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 0.65
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3064810 p.Thr461Ser missense_variant 0.34
Rv3083 3448322 c.-182G>A upstream_gene_variant 0.28
Rv3083 3448567 p.His22Asp missense_variant 0.97
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.79
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267272 p.Lys522Arg missense_variant 0.63
ethR 4326739 c.-810G>C upstream_gene_variant 0.64
ethA 4328004 c.-531C>T upstream_gene_variant 0.7
whiB6 4338595 c.-75delG upstream_gene_variant 1.0