TB-Profiler result

Run: SRR13861539

Summary

Run ID: SRR13861539

Sample name:

Date: 03-04-2023 09:34:16

Number of reads: 27829

Percentage reads mapped: 2.79

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
fbiC 1303995 c.1065C>T synonymous_variant 0.67
fbiC 1304001 c.1071C>G synonymous_variant 0.67
fbiC 1304008 c.1078T>C synonymous_variant 0.67
fbiC 1304034 c.1104A>G synonymous_variant 0.67
fbiC 1304040 c.1110C>G synonymous_variant 0.67
fbiC 1304046 c.1116C>G synonymous_variant 0.67
fbiC 1304049 c.1119T>G synonymous_variant 0.67
rrl 1476640 n.2983C>A non_coding_transcript_exon_variant 1.0
clpC1 4039842 c.862_863insT frameshift_variant 1.0
embA 4244247 p.Val339Ile missense_variant 0.5
embA 4244254 p.Arg341His missense_variant 0.5
embA 4244257 p.Phe342Trp missense_variant 0.67
embA 4244267 c.1035G>C synonymous_variant 0.67
embA 4244276 c.1044A>C synonymous_variant 0.67
embA 4244284 p.Pro351Arg missense_variant 0.67
embA 4244298 p.Ser356Ala missense_variant 0.67
embA 4244309 c.1077C>G synonymous_variant 0.67
embA 4244312 c.1080T>G synonymous_variant 0.67
embA 4244315 c.1083G>C synonymous_variant 0.67
embA 4244324 c.1092T>G synonymous_variant 0.67
embA 4244327 c.1095T>C synonymous_variant 0.67
embA 4244337 p.Leu369Val missense_variant 0.67
embA 4244340 p.Ser370Ala missense_variant 0.67
embA 4244366 c.1134C>G synonymous_variant 0.5
embA 4244372 c.1140T>G synonymous_variant 0.5