TB-Profiler result

Run: SRR13837466
Summary

Run ID: SRR13837466

Sample name:

Date: 03-04-2023 09:11:07

Number of reads: 883093

Percentage reads mapped: 97.18

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
pncA 2289223 p.Val7Leu missense_variant 1.0 pyrazinamide
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 5850 c.611_612insA frameshift_variant 0.96
rpoB 762083 c.2277T>A synonymous_variant 1.0
rpoC 766578 p.Asp1070Val missense_variant 1.0
mmpL5 776436 p.Ala682Gly missense_variant 1.0
fbiC 1303756 c.827dupC frameshift_variant 1.0
fbiC 1304155 p.Arg409Gly missense_variant 1.0
atpE 1460879 c.-166C>A upstream_gene_variant 1.0
ndh 2102784 p.Gly87Ser missense_variant 1.0
pncA 2290201 c.-960G>A upstream_gene_variant 1.0
kasA 2518058 c.-57G>A upstream_gene_variant 1.0
eis 2714947 p.Phe129Ser missense_variant 1.0
pepQ 2860319 p.Ser34Thr missense_variant 1.0
Rv2752c 3064817 p.Asp459Tyr missense_variant 1.0
whiB7 3568660 p.Pro7Leu missense_variant 1.0
alr 3841536 c.-117_-116insT upstream_gene_variant 1.0
ddn 3986940 p.Asp33His missense_variant 1.0
clpC1 4039391 c.1314T>C synonymous_variant 0.14
clpC1 4039409 c.1296T>C synonymous_variant 0.11
clpC1 4039412 c.1293T>G synonymous_variant 0.11
clpC1 4039415 p.Glu430Asp missense_variant 0.11
clpC1 4039430 c.1275T>C synonymous_variant 0.12
clpC1 4039442 c.1263A>G synonymous_variant 0.12
clpC1 4039454 c.1251A>G synonymous_variant 0.12
clpC1 4039466 c.1239T>C synonymous_variant 0.12
clpC1 4039469 c.1236T>C synonymous_variant 0.12
clpC1 4039472 c.1233G>C synonymous_variant 0.12
clpC1 4039478 c.1227G>C synonymous_variant 0.12
clpC1 4039481 c.1224T>C synonymous_variant 0.12
clpC1 4039487 c.1218G>C synonymous_variant 0.12
clpC1 4039522 c.1183C>T synonymous_variant 0.14
clpC1 4039528 c.1177C>A synonymous_variant 0.19
clpC1 4039574 c.1131G>C synonymous_variant 0.1
embB 4246529 p.Ser6Arg missense_variant 1.0