TB-Profiler result

Run: ERR2229290
Summary

Run ID: ERR2229290

Sample name:

Date: 31-03-2023 16:57:21

Number of reads: 1048870

Percentage reads mapped: 99.13

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 0.99
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 9748 p.Ala816Val missense_variant 0.15
mshA 575229 c.-119T>A upstream_gene_variant 0.11
mshA 576108 p.Ala254Gly missense_variant 0.23
mshA 576114 p.Arg256Pro missense_variant 0.29
rpoC 764541 p.Val391Gly missense_variant 0.13
rpoC 764543 p.Thr392Asp missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775701 p.Pro927Gln missense_variant 0.13
mmpL5 777214 p.Ala423Ser missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1406533 p.Gly270Arg missense_variant 0.12
atpE 1460965 c.-80A>T upstream_gene_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475212 n.1555A>T non_coding_transcript_exon_variant 0.25
fabG1 1673357 c.-83G>A upstream_gene_variant 0.12
fabG1 1673359 c.-81T>C upstream_gene_variant 0.14
fabG1 1673361 c.-79C>G upstream_gene_variant 0.14
fabG1 1673380 c.-60C>G upstream_gene_variant 0.18
fabG1 1673827 p.Asn130Asp missense_variant 0.12
inhA 1674486 p.Ile95Met missense_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102320 c.723G>C synonymous_variant 0.12
PPE35 2167814 c.2799C>T synonymous_variant 0.15
PPE35 2167967 c.2646A>C synonymous_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169278 c.1335T>C synonymous_variant 0.15
PPE35 2169281 c.1332T>G synonymous_variant 0.16
PPE35 2169902 p.Leu237Phe missense_variant 0.21
PPE35 2169910 p.Asn235Tyr missense_variant 0.18
PPE35 2170048 p.Leu189Val missense_variant 0.35
PPE35 2170053 p.Thr187Ser missense_variant 0.37
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518295 p.Gly61Ser missense_variant 0.12
folC 2747524 c.75G>T synonymous_variant 0.12
Rv2752c 3067121 c.-930A>C upstream_gene_variant 0.14
whiB7 3568445 p.His79Tyr missense_variant 0.12
rpoA 3878560 c.-53C>T upstream_gene_variant 0.33
clpC1 4039645 p.His354Asp missense_variant 0.12
clpC1 4039654 p.Thr351Ser missense_variant 0.13
clpC1 4040441 c.264C>G synonymous_variant 0.22
embC 4240380 p.Gln173Pro missense_variant 0.13
embC 4241671 c.1809T>A synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245076 p.Ala615Val missense_variant 0.13
aftB 4267090 p.Thr583Ala missense_variant 0.12
ethR 4327819 c.273delC frameshift_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0