TB-Profiler result

Run: ERR2229266
Summary

Run ID: ERR2229266

Sample name:

Date: 31-03-2023 16:54:03

Number of reads: 1130501

Percentage reads mapped: 99.21

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
fgd1 491457 c.675C>A synonymous_variant 0.12
mshA 576108 p.Ala254Gly missense_variant 0.33
mshA 576111 p.Ala255Gly missense_variant 0.5
mshA 576518 p.Ser391Ala missense_variant 0.33
rpoC 765302 p.Glu645Gln missense_variant 0.11
rpoC 766819 p.His1150Gln missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775736 c.2745C>G synonymous_variant 0.11
mmpL5 776018 c.2463G>C synonymous_variant 0.18
mmpL5 776021 c.2460G>C synonymous_variant 0.2
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 1673380 c.-60C>G upstream_gene_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167746 p.Thr956Ser missense_variant 0.15
PPE35 2167814 c.2799C>T synonymous_variant 0.2
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169091 p.Val508Leu missense_variant 0.26
PPE35 2169287 c.1326T>C synonymous_variant 0.12
PPE35 2169902 c.711G>C synonymous_variant 0.17
PPE35 2169910 p.Asn235Tyr missense_variant 0.19
PPE35 2169939 p.Gly225Ala missense_variant 0.12
PPE35 2169944 c.669G>C synonymous_variant 0.12
PPE35 2169947 c.666T>C synonymous_variant 0.11
PPE35 2170048 p.Leu189Val missense_variant 0.26
PPE35 2170053 p.Thr187Ser missense_variant 0.29
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518791 p.Ala226Val missense_variant 0.15
kasA 2519099 c.987delC frameshift_variant 0.13
pepQ 2859818 p.Ala201Ser missense_variant 0.14
fprA 3474875 p.Gly290Asp missense_variant 0.17
clpC1 4039645 p.His354Asp missense_variant 0.19
embC 4241836 c.1974A>T synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244666 c.1434G>A synonymous_variant 0.12
embA 4244814 c.1582C>T synonymous_variant 0.25
embA 4245390 p.Lys720Glu missense_variant 0.2
embB 4246553 c.40C>A synonymous_variant 0.29
embB 4247028 p.Leu172Arg missense_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0