TB-Profiler result

Run: ERR2229551
Summary

Run ID: ERR2229551

Sample name:

Date: 31-03-2023 17:18:23

Number of reads: 1244965

Percentage reads mapped: 99.48

Strain: lineage4.8

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
ccsA 619760 c.-131G>T upstream_gene_variant 0.15
rpoB 760994 p.Glu396Asp missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
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
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475047 n.1390G>A non_coding_transcript_exon_variant 0.12
rrl 1475135 n.1478G>T non_coding_transcript_exon_variant 0.22
fabG1 1673380 c.-60C>G upstream_gene_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101655 p.Ser463Thr missense_variant 0.11
PPE35 2167745 p.Thr956Arg missense_variant 0.18
PPE35 2167865 c.2748G>C synonymous_variant 0.17
PPE35 2167868 c.2745A>C synonymous_variant 0.16
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169269 c.1344A>G synonymous_variant 0.19
PPE35 2169272 c.1341C>G synonymous_variant 0.18
PPE35 2170035 p.Val193Ala missense_variant 0.14
PPE35 2170048 p.Leu189Val missense_variant 0.6
PPE35 2170053 p.Thr187Ser missense_variant 0.61
PPE35 2170147 p.Ser156Ala missense_variant 0.19
PPE35 2170159 p.Ala152Ser missense_variant 0.18
PPE35 2170164 p.Ala150Val missense_variant 0.12
PPE35 2170169 c.444A>G synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289656 c.-415C>G upstream_gene_variant 0.17
kasA 2519140 c.1026G>C synonymous_variant 0.16
kasA 2519143 c.1029G>C synonymous_variant 0.15
folC 2747712 c.-114C>T upstream_gene_variant 0.13
pepQ 2860176 c.243C>A synonymous_variant 0.17
pepQ 2860398 c.21A>G synonymous_variant 0.13
pepQ 2860405 p.Gln5Arg missense_variant 0.12
Rv2752c 3064903 p.Asp430Gly missense_variant 0.12
Rv2752c 3065389 p.Arg268Leu missense_variant 0.12
ald 3087934 c.1115G>A splice_region_variant&stop_retained_variant 0.14
fbiD 3339735 c.618G>C synonymous_variant 0.33
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
whiB7 3568428 c.252A>G synonymous_variant 0.25
fbiB 3641593 p.Leu20Pro missense_variant 0.13
embA 4242304 c.-929G>C upstream_gene_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243984 p.Arg251Gln missense_variant 0.12
embA 4244797 p.Leu522Pro missense_variant 0.12
embA 4244930 c.1698G>T synonymous_variant 0.15
embA 4246025 p.Trp931* stop_gained 0.11
embB 4246548 p.Pro12Gln missense_variant 0.36
embB 4246555 c.42G>C synonymous_variant 0.36
embB 4246556 p.Ala15Pro missense_variant 0.36
embB 4246616 p.Leu35Met missense_variant 0.12
embB 4249688 p.Arg1059Ser missense_variant 0.2
aftB 4268892 c.-56T>C upstream_gene_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0