TB-Profiler result

Run: SRR13837959

Summary

Run ID: SRR13837959

Sample name:

Date: 03-04-2023 09:23:01

Number of reads: 1469074

Percentage reads mapped: 99.0

Strain: lineage4.9

Drug-resistance: HR-TB


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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
lineage4.9 Euro-American (H37Rv-like) T1 None 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
katG 2154411 c.1700delT frameshift_variant 1.0 isoniazid
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 7949 c.648G>T synonymous_variant 1.0
gyrA 8123 p.Leu274Phe missense_variant 1.0
gyrA 9768 p.Gly823Cys missense_variant 1.0
rpoC 763734 p.Pro122Leu missense_variant 1.0
rrl 1476640 n.2983C>A non_coding_transcript_exon_variant 0.98
tlyA 1918034 p.Val32Ala missense_variant 1.0
katG 2155918 p.Ala65Val missense_variant 1.0
PPE35 2168767 p.Ser616Gly missense_variant 1.0
Rv1979c 2222377 p.Val263Gly missense_variant 0.98
ribD 2986993 p.Gly52Val missense_variant 1.0
Rv2752c 3065787 c.405G>C synonymous_variant 1.0
Rv3083 3448649 p.Arg49Pro missense_variant 1.0
Rv3236c 3613067 p.Val17Gly missense_variant 1.0
Rv3236c 3613315 c.-199T>G upstream_gene_variant 1.0
fbiA 3640435 c.-108A>C upstream_gene_variant 1.0
clpC1 4039842 c.862_863insT frameshift_variant 1.0
panD 4044103 p.Ile60Ser missense_variant 1.0
embA 4245031 p.Arg600Gln missense_variant 1.0
gid 4408218 c.-16G>T upstream_gene_variant 1.0