TB-Profiler result

Run: SRR13837846

Summary

Run ID: SRR13837846

Sample name:

Date: 03-04-2023 09:19:59

Number of reads: 148477

Percentage reads mapped: 97.04

Strain: lineage4.9

Drug-resistance: Sensitive


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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
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 5532 c.295dupG frameshift_variant 1.0
gyrB 5832 p.Ala198Gly missense_variant 1.0
gyrA 6976 c.-326A>G upstream_gene_variant 1.0
fgd1 491643 c.861G>A synonymous_variant 0.25
ccsA 619735 c.-156G>C upstream_gene_variant 1.0
ccsA 620100 c.210G>T synonymous_variant 1.0
rpoB 759609 c.-198C>A upstream_gene_variant 1.0
rpoB 760830 c.1024T>C synonymous_variant 0.22
rpoC 763050 c.-320C>T upstream_gene_variant 1.0
rpoC 766657 c.3288A>G synonymous_variant 0.4
rpoC 766672 c.3303T>C synonymous_variant 0.29
rpoC 766673 p.Gly1102Asn missense_variant 0.29
rpoC 766726 c.3357T>C synonymous_variant 0.29
rpoC 766738 c.3369G>C synonymous_variant 0.29
rpoC 766774 c.3405T>C synonymous_variant 0.25
rpoC 766861 c.3492G>C synonymous_variant 0.29
rpoC 766864 c.3495G>C synonymous_variant 0.25
rpoC 766900 c.3531T>C synonymous_variant 0.2
mmpL5 776796 p.Val562Ala missense_variant 1.0
mmpS5 778642 p.Trp88* stop_gained 1.0
Rv1258c 1407009 p.Ala111Asp missense_variant 1.0
inhA 1674891 p.Trp230Cys missense_variant 1.0
tlyA 1918625 p.Pro229Leu missense_variant 1.0
Rv1979c 2222721 c.444G>C synonymous_variant 1.0
ahpC 2726345 p.Phe51Leu missense_variant 1.0
Rv2752c 3067095 c.-904G>C upstream_gene_variant 1.0
Rv3083 3448912 p.Ile137Phe missense_variant 1.0
fprA 3474133 p.Pro43Thr missense_variant 1.0
whiB7 3568676 p.Ser2Ala missense_variant 0.83
alr 3840783 c.637_638insT frameshift_variant 1.0
clpC1 4038326 p.Glu793Asp missense_variant 1.0
embC 4241026 c.1164C>G synonymous_variant 0.86
embA 4242250 c.-983C>G upstream_gene_variant 1.0
embB 4247398 c.885G>T synonymous_variant 1.0
embB 4249328 p.Met939Leu missense_variant 1.0
aftB 4267490 c.1347G>C synonymous_variant 1.0
ethA 4326203 p.Ser424* stop_gained 1.0