TB-Profiler result

Run: SRR1577835

Summary

Run ID: SRR1577835

Sample name:

Date: 03-04-2023 14:50:58

Number of reads: 1539330

Percentage reads mapped: 64.7

Strain: lineage4.1.3

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.3 Euro-American T;X;H None 0.99
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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 761738 c.1937_1939dupAGG disruptive_inframe_insertion 0.11
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766201 c.2832G>A synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781421 c.-139C>A upstream_gene_variant 0.96
fbiC 1304610 c.1680C>T synonymous_variant 1.0
Rv1258c 1406442 p.Leu300Trp missense_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673515 p.Gly26Arg missense_variant 0.11
rpsA 1833352 c.-190C>A upstream_gene_variant 0.29
tlyA 1917951 c.12T>G synonymous_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2859376 p.Thr348Met missense_variant 0.12
thyX 3068083 c.-138T>G upstream_gene_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 0.97
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embC 4241562 c.1705_1707dupATC conservative_inframe_insertion 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
aftB 4267959 p.Val293Gly missense_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0