TB-Profiler result

Run: ERR2229195
Summary

Run ID: ERR2229195

Sample name:

Date: 31-03-2023 16:47:42

Number of reads: 568309

Percentage reads mapped: 99.67

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 9250 p.Ala650Glu missense_variant 0.11
mshA 576397 c.1051delT frameshift_variant 0.18
mshA 576426 c.1081delG frameshift_variant 0.14
rpoC 766140 p.Thr924Asn missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776647 p.Val612Phe missense_variant 0.13
mmpL5 777164 c.1317C>T synonymous_variant 0.15
mmpL5 777173 c.1308C>T synonymous_variant 0.15
mmpL5 777176 p.Glu435Asp missense_variant 0.15
mmpL5 777191 c.1290C>A synonymous_variant 0.13
mmpL5 777196 p.Glu429Gln missense_variant 0.14
mmpS5 778757 p.Pro50Gln missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472535 n.690C>T non_coding_transcript_exon_variant 0.17
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673359 c.-81T>C upstream_gene_variant 0.1
fabG1 1673361 c.-79C>G upstream_gene_variant 0.1
fabG1 1673380 c.-60C>G upstream_gene_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101737 p.Ala436Thr missense_variant 0.13
PPE35 2167868 c.2745A>C synonymous_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 p.Leu237Phe missense_variant 0.22
PPE35 2169910 p.Asn235Tyr missense_variant 0.23
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290095 c.-854C>A upstream_gene_variant 0.13
Rv2752c 3064587 c.1605C>A synonymous_variant 0.15
Rv2752c 3066383 c.-192T>C upstream_gene_variant 0.1
ald 3087221 p.Ser134Arg missense_variant 0.14
ald 3087237 p.Leu140Ile missense_variant 0.2
fprA 3474108 p.Met34Ile missense_variant 0.14
rpoA 3878679 c.-172G>A upstream_gene_variant 0.33
clpC1 4040822 c.-118C>A upstream_gene_variant 0.17
embC 4239796 c.-67C>A upstream_gene_variant 0.13
embC 4241833 p.Trp657Cys missense_variant 0.2
embC 4242070 c.2208T>C synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244281 c.1052delC frameshift_variant 0.12
embB 4249205 p.Val898Leu missense_variant 0.12
aftB 4267858 p.Ile327Val missense_variant 0.12
aftB 4268498 c.339T>C synonymous_variant 0.22
aftB 4269147 c.-311G>T upstream_gene_variant 0.14
ethA 4326960 p.Asp172Tyr missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407584 p.Arg207Cys missense_variant 0.12
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0