TB-Profiler result

Run: ERR2229137
Summary

Run ID: ERR2229137

Sample name:

Date: 31-03-2023 16:43:42

Number of reads: 971505

Percentage reads mapped: 99.45

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
mshA 576322 c.975G>C synonymous_variant 0.12
ccsA 620359 p.Tyr157His missense_variant 0.17
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
fabG1 1673357 c.-83G>A upstream_gene_variant 0.16
fabG1 1673359 c.-81T>C upstream_gene_variant 0.17
fabG1 1673361 c.-79C>G upstream_gene_variant 0.17
fabG1 1673380 c.-60C>G upstream_gene_variant 0.34
fabG1 1673848 p.Phe137Ile missense_variant 0.12
fabG1 1674094 p.Gly219Trp missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102389 c.654G>C synonymous_variant 0.13
ndh 2102392 c.651C>A synonymous_variant 0.13
ndh 2102401 c.642T>C synonymous_variant 0.14
ndh 2102407 c.636T>C synonymous_variant 0.14
PPE35 2167745 p.Thr956Arg missense_variant 0.24
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.24
PPE35 2170053 p.Thr187Ser missense_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519140 c.1026G>C synonymous_variant 0.12
kasA 2519143 c.1029G>C synonymous_variant 0.12
kasA 2519259 p.Leu382His missense_variant 0.11
eis 2714307 c.1025delC frameshift_variant 0.13
folC 2746886 p.Val238Ala missense_variant 0.11
folC 2747135 p.Leu155His missense_variant 0.17
folC 2747786 c.-188G>T upstream_gene_variant 0.11
fbiA 3640888 c.349delC frameshift_variant 0.15
clpC1 4038983 c.1722C>T synonymous_variant 0.12
embC 4240334 p.Thr158Ser missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243646 c.414G>T synonymous_variant 0.11
embA 4244752 p.Val507Glu missense_variant 0.12
embB 4246544 p.Thr11Pro missense_variant 0.2
embB 4246555 c.42G>C synonymous_variant 0.29
embB 4246556 p.Ala15Pro missense_variant 0.29
embB 4246563 p.Leu17Trp missense_variant 0.29
embB 4246567 c.54G>T synonymous_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0