TB-Profiler result

Run: ERR2229181
Summary

Run ID: ERR2229181

Sample name:

Date: 31-03-2023 16:47:28

Number of reads: 803526

Percentage reads mapped: 99.37

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
gyrB 6798 p.Gly520Asp missense_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
rpoB 760753 p.Leu316Pro missense_variant 0.1
rpoB 761285 c.1479G>A synonymous_variant 0.22
rpoC 763887 p.Arg173Leu 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
fbiC 1305049 p.Thr707Ser missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471881 n.36A>G non_coding_transcript_exon_variant 0.11
rrs 1473264 n.1419A>G non_coding_transcript_exon_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673346 c.-94C>G upstream_gene_variant 0.12
fabG1 1673380 c.-60C>G upstream_gene_variant 0.23
rpsA 1834914 p.Lys458Arg missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168585 c.2028T>C synonymous_variant 0.17
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.48
PPE35 2170053 p.Thr187Ser missense_variant 0.46
PPE35 2170540 c.73C>T synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289367 c.-126C>A upstream_gene_variant 0.12
kasA 2518508 p.Gly132Cys missense_variant 0.2
kasA 2518791 p.Ala226Val missense_variant 0.22
kasA 2519128 c.1014G>C synonymous_variant 0.17
kasA 2519131 c.1017G>C synonymous_variant 0.15
kasA 2519140 c.1026G>C synonymous_variant 0.17
kasA 2519143 c.1029G>C synonymous_variant 0.17
ahpC 2725923 c.-270A>T upstream_gene_variant 0.13
folC 2747005 p.Ser198Arg missense_variant 0.14
ald 3087260 p.Tyr147* stop_gained 0.22
fbiD 3339739 p.Ala208Pro missense_variant 0.25
fbiB 3642216 p.Thr228Ser missense_variant 0.13
fbiB 3642595 p.Pro354Leu missense_variant 0.13
clpC1 4039497 p.Ile403Asn missense_variant 0.22
clpC1 4040037 p.Thr223Ile missense_variant 0.12
embC 4240502 p.Phe214Val missense_variant 0.18
embC 4241760 p.Ser633Leu missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.5
embB 4246548 p.Pro12Gln missense_variant 0.5
embB 4246555 c.42G>C synonymous_variant 0.67
embB 4246556 p.Ala15Pro missense_variant 0.67
embB 4246563 p.Leu17Trp missense_variant 0.67
embB 4246567 c.54G>T synonymous_variant 0.8
ubiA 4269577 c.256delA frameshift_variant 0.1
ubiA 4270029 c.-196G>A upstream_gene_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0