TB-Profiler result

Run: ERR027444
Summary

Run ID: ERR027444

Sample name:

Date: 31-03-2023 08:20:38

Number of reads: 206989

Percentage reads mapped: 98.46

Strain: lineage4.9;lineage2.2

Drug-resistance: Other

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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 0.95
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.11
lineage4.9 Euro-American (H37Rv-like) T1 None 0.66
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
rrs 1472362 n.517C>T non_coding_transcript_exon_variant 0.5 streptomycin
eis 2715369 c.-37G>T upstream_gene_variant 0.6 kanamycin
embA 4243217 c.-16C>T upstream_gene_variant 0.75 ethambutol
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 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 0.67
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 0.67
PPE35 2169320 p.Leu431Phe missense_variant 0.67
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086731 c.-89A>G upstream_gene_variant 0.5
ald 3086788 c.-32T>C upstream_gene_variant 1.0
embA 4243346 c.114A>G synonymous_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.67
gid 4407927 p.Glu92Asp missense_variant 1.0