TB-Profiler result

Run: ERR4814364
Summary

Run ID: ERR4814364

Sample name:

Date: 01-04-2023 13:15:07

Number of reads: 413499

Percentage reads mapped: 99.39

Strain: lineage4.1.1.3

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 1.0
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 1.0
lineage4.1.1.3 Euro-American (X-type) X1;X3 RD193 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
gyrB 5185 c.-55C>A upstream_gene_variant 0.17
gyrB 5611 c.376_381delTCGGTG conservative_inframe_deletion 0.13
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620752 p.Arg288Gly missense_variant 0.17
rpoB 759620 c.-187A>C upstream_gene_variant 0.3
rpoB 760787 c.981G>A synonymous_variant 0.22
rpoC 764059 c.690G>C synonymous_variant 0.13
rpoC 764083 c.714A>G synonymous_variant 0.14
rpoC 764098 c.729A>G synonymous_variant 0.14
rpoC 764101 c.732C>G synonymous_variant 0.14
rpoC 764110 c.741C>T synonymous_variant 0.14
rpoC 764131 c.762T>C synonymous_variant 0.13
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776029 c.2451delG frameshift_variant 0.14
mmpL5 776139 p.Ile781Thr missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417335 p.Ala5Ser missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834130 p.Glu197Lys missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168806 p.Gly603Cys missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518151 p.Ser13Arg missense_variant 0.21
ribD 2987373 p.Val179Met missense_variant 0.22
Rv2752c 3064617 c.1575T>C synonymous_variant 0.11
Rv2752c 3066036 c.156C>T synonymous_variant 0.2
thyX 3067901 c.45C>T synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878367 c.141C>A synonymous_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243622 c.390G>A synonymous_variant 1.0
embA 4245026 p.His598Gln missense_variant 0.15
embA 4245349 p.Ala706Asp missense_variant 0.12
embA 4245433 p.Ala734Val missense_variant 0.12
embB 4249115 p.Pro868Ser missense_variant 0.13
embB 4249408 c.2895G>A synonymous_variant 1.0
aftB 4268886 c.-50G>A upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0