TB-Profiler result

Run: ERR2228814
Summary

Run ID: ERR2228814

Sample name:

Date: 31-03-2023 16:21:51

Number of reads: 1052990

Percentage reads mapped: 99.37

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 0.98
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 576108 p.Ala254Gly missense_variant 0.14
rpoB 760155 p.Lys117* stop_gained 0.31
rpoB 760367 c.561G>A synonymous_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779243 p.Val85Gly missense_variant 0.21
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
rrs 1472212 n.367T>A non_coding_transcript_exon_variant 0.17
rrl 1473976 n.319T>C non_coding_transcript_exon_variant 0.18
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475089 n.1432A>T non_coding_transcript_exon_variant 0.23
fabG1 1673380 c.-60C>G upstream_gene_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103230 c.-188T>G upstream_gene_variant 0.21
katG 2154866 p.Ile416Phe missense_variant 0.2
PPE35 2167745 p.Thr956Arg missense_variant 0.21
PPE35 2168231 c.2382T>A synonymous_variant 0.38
PPE35 2168452 p.Ile721Phe missense_variant 0.18
PPE35 2168555 c.2058T>C synonymous_variant 0.13
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169377 p.Phe412Leu missense_variant 0.14
PPE35 2170263 p.Leu117Arg missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2859688 p.Asp244Ala missense_variant 0.43
pepQ 2859710 p.Phe237Ile missense_variant 0.18
thyX 3067341 p.Glu202Ala missense_variant 0.12
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
rpoA 3878490 c.18C>G synonymous_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245624 p.Ser798Pro missense_variant 0.14
embB 4249699 c.3186T>G synonymous_variant 0.15
aftB 4268662 p.Thr59Pro missense_variant 0.15
ethA 4328025 c.-552T>G upstream_gene_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0