TB-Profiler result

Run: SRR13837510
Summary

Run ID: SRR13837510

Sample name:

Date: 03-04-2023 09:12:06

Number of reads: 593311

Percentage reads mapped: 97.93

Strain: lineage4.9

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 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
embR 1416784 p.Ser188Arg missense_variant 1.0 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
fgd1 490771 c.-12T>G upstream_gene_variant 1.0
rpoB 760591 p.Val262Ala missense_variant 0.12
rpoB 760611 c.805T>C synonymous_variant 0.12
rpoB 761125 c.1320dupG frameshift_variant 0.95
rpoB 761813 c.2007T>C synonymous_variant 0.16
rpoB 761815 p.Ala670Glu missense_variant 0.17
rpoB 761834 c.2028T>C synonymous_variant 0.16
rpoB 761847 p.Cys681Ser missense_variant 0.14
rpoB 761858 c.2052G>C synonymous_variant 0.11
rpoB 761864 c.2058G>C synonymous_variant 0.11
rpoB 761873 c.2067A>G synonymous_variant 0.12
rpoB 761885 c.2079T>C synonymous_variant 0.11
rpoB 761891 c.2085G>C synonymous_variant 0.11
rpoB 761906 c.2100C>G synonymous_variant 0.11
rpoB 761909 c.2103T>C synonymous_variant 0.11
rpoB 761989 p.Ala728Val missense_variant 0.9
rpoB 762083 c.2277T>C synonymous_variant 0.11
rpoB 762086 c.2280G>C synonymous_variant 0.12
rpoC 763884 p.Ala172Asp missense_variant 0.95
rpoC 764449 c.1080G>C synonymous_variant 0.11
rpoC 764497 c.1128A>G synonymous_variant 0.13
rpoC 764514 p.Phe382Tyr missense_variant 1.0
rpoC 765936 p.Ala856Gly missense_variant 0.93
mmpL5 776303 c.2178G>C synonymous_variant 1.0
fbiC 1303334 p.Gly135Val missense_variant 1.0
fbiC 1303947 c.1017T>C synonymous_variant 0.15
fbiC 1303948 p.Gly340Arg missense_variant 0.15
embR 1416250 c.1098C>A synonymous_variant 1.0
rrl 1474218 n.561T>C non_coding_transcript_exon_variant 1.0
rrl 1475718 n.2061T>G non_coding_transcript_exon_variant 1.0
fabG1 1673184 c.-256T>C upstream_gene_variant 1.0
rpsA 1833707 p.Gly56Arg missense_variant 0.96
tlyA 1918168 p.Phe77Leu missense_variant 1.0
kasA 2518023 c.-92C>T upstream_gene_variant 1.0
kasA 2518783 c.669T>C synonymous_variant 0.12
kasA 2518795 c.681C>G synonymous_variant 0.12
eis 2715279 c.54A>G synonymous_variant 1.0
folC 2747689 c.-91C>T upstream_gene_variant 1.0
fbiD 3339289 p.Ser58Ala missense_variant 1.0
fprA 3474463 p.Ile153Phe missense_variant 1.0
clpC1 4038389 c.2316G>C synonymous_variant 1.0
clpC1 4040326 p.Leu127Val missense_variant 1.0
embC 4241920 p.Asp686Glu missense_variant 1.0
embB 4248118 c.1605T>C synonymous_variant 0.14
embB 4248127 c.1614G>C synonymous_variant 0.14
embB 4248133 c.1620C>G synonymous_variant 0.13
embB 4248142 c.1629T>C synonymous_variant 0.14
embB 4248143 c.1630T>C synonymous_variant 0.14
embB 4248157 c.1644A>G synonymous_variant 0.15
embB 4248266 c.1753C>T synonymous_variant 0.12
embB 4248277 c.1764G>C synonymous_variant 0.11
ubiA 4269209 p.Ser209Thr missense_variant 1.0