TB-Profiler result

Run: SRR13837509

Summary

Run ID: SRR13837509

Sample name:

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

Number of reads: 587730

Percentage reads mapped: 98.01

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 761125 c.1320dupG frameshift_variant 1.0
rpoB 761989 p.Ala728Val missense_variant 1.0
rpoC 763884 p.Ala172Asp missense_variant 1.0
rpoC 764514 p.Phe382Tyr missense_variant 1.0
rpoC 765936 p.Ala856Gly missense_variant 1.0
mmpL5 776303 c.2178G>C synonymous_variant 1.0
fbiC 1303334 p.Gly135Val missense_variant 1.0
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
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.16
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.17
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.12
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.12
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.12
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.12
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.12
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.13
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.12
fabG1 1673184 c.-256T>C upstream_gene_variant 1.0
rpsA 1833707 p.Gly56Arg missense_variant 1.0
tlyA 1918168 p.Phe77Leu missense_variant 1.0
kasA 2518023 c.-92C>T upstream_gene_variant 1.0
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
ubiA 4269209 p.Ser209Thr missense_variant 1.0