TB-Profiler result

Run: SRR2100421
Summary

Run ID: SRR2100421

Sample name:

Date: 03-04-2023 23:02:43

Number of reads: 6912019

Percentage reads mapped: 99.1

Strain: lineage4.1.2.1

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 0.99
lineage4.1.2 Euro-American T;H None 0.99
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
fgd1 491591 p.Lys270Met missense_variant 0.97
mshA 575679 p.Asn111Ser missense_variant 0.99
rpoB 760002 p.Glu66Lys missense_variant 0.99
rpoB 760115 c.309C>T synonymous_variant 0.98
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1460960 c.-85C>T upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918164 c.225G>A synonymous_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.22
PPE35 2169711 c.901delC frameshift_variant 0.99
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
Rv2752c 3065456 p.Gln246* stop_gained 0.99
thyA 3073806 c.666C>G synonymous_variant 0.16
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.99
rpoA 3878641 c.-135delG upstream_gene_variant 0.11
clpC1 4038857 c.1848C>A synonymous_variant 0.15
embC 4242425 p.Arg855Gly missense_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.98
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408311 c.-109C>T upstream_gene_variant 1.0