TB-Profiler result

Run: SRR13837697
Summary

Run ID: SRR13837697

Sample name:

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

Number of reads: 295644

Percentage reads mapped: 98.6

Strain: lineage4.9

Drug-resistance: HR-TB

Download CSV Download TXT Download PDF Download JSON
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 2154798 c.1313_1314insT 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
gyrB 5906 p.Val223Leu missense_variant 1.0
gyrB 6011 p.Val258Met missense_variant 1.0
gyrB 6280 c.1041T>C synonymous_variant 0.2
gyrB 6286 c.1047T>C synonymous_variant 0.2
gyrB 6292 c.1053G>C synonymous_variant 0.2
gyrB 6295 c.1056A>G synonymous_variant 0.18
gyrB 6298 c.1059C>T synonymous_variant 0.2
gyrB 6299 c.1060C>T synonymous_variant 0.2
gyrA 6307 c.-995T>G upstream_gene_variant 0.2
gyrA 6319 c.-983G>C upstream_gene_variant 0.2
gyrA 6325 c.-977C>G upstream_gene_variant 0.18
gyrA 6361 c.-941G>A upstream_gene_variant 0.18
gyrA 6362 c.-940T>C upstream_gene_variant 0.18
gyrB 6678 p.Pro480Arg missense_variant 0.92
fgd1 490676 c.-107G>C upstream_gene_variant 1.0
ccsA 620028 c.138G>C synonymous_variant 1.0
rpoB 759638 c.-169T>A upstream_gene_variant 1.0
rpoB 760454 c.650delG frameshift_variant 1.0
rpoC 763888 c.519G>C synonymous_variant 0.12
rpoC 763894 c.525A>G synonymous_variant 0.12
rpoC 765487 p.Met706Ile missense_variant 1.0
rpoC 766978 c.3609C>G synonymous_variant 0.4
rpsL 781409 c.-151T>A upstream_gene_variant 1.0
fbiC 1302873 c.-58A>T upstream_gene_variant 1.0
rrs 1471874 n.29A>C non_coding_transcript_exon_variant 1.0
rrl 1474904 n.1247G>A non_coding_transcript_exon_variant 0.29
katG 2154654 p.Ser486Arg missense_variant 1.0
katG 2154882 c.1230G>A synonymous_variant 1.0
katG 2155857 c.255C>A synonymous_variant 1.0
PPE35 2170198 p.Ala139Ser missense_variant 1.0
PPE35 2170643 c.-31G>T upstream_gene_variant 0.2
pncA 2290069 c.-828C>T upstream_gene_variant 1.0
eis 2714922 c.411G>A synonymous_variant 1.0
thyA 3074067 c.405C>G synonymous_variant 1.0
alr 3840223 c.1198A>C synonymous_variant 1.0
alr 3840711 p.Ser237Leu missense_variant 1.0
rpoA 3877818 c.690A>G synonymous_variant 0.18
rpoA 3877839 c.669G>C synonymous_variant 0.18
rpoA 3877875 c.633T>G synonymous_variant 0.25
clpC1 4039648 p.Glu353Gln missense_variant 1.0
embC 4242023 p.Val721Leu missense_variant 1.0
embA 4245071 c.1839G>A synonymous_variant 1.0
ethA 4327364 p.Lys37Arg missense_variant 1.0