TB-Profiler result

Run: ERR4024584
Summary

Run ID: ERR4024584

Sample name:

Date: 01-04-2023 04:02:27

Number of reads: 1980729

Percentage reads mapped: 99.54

Strain: lineage4.1.2.1;lineage2.2.1

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
lineage2 East-Asian Beijing RD105 0.11
lineage4 Euro-American LAM;T;S;X;H None 0.89
lineage4.1 Euro-American T;X;H None 0.88
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.09
lineage4.1.2 Euro-American T;H None 0.89
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.11
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.87
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 0.95
fgd1 491742 c.960T>C synonymous_variant 0.13
mshA 575679 p.Asn111Ser missense_variant 0.83
ccsA 620625 p.Ile245Met missense_variant 0.15
rpoB 760115 c.309C>T synonymous_variant 0.87
rpoC 765150 p.Gly594Glu missense_variant 0.88
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.2
PPE35 2167926 p.Leu896Ser missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 0.91
Rv2752c 3067039 c.-848T>C upstream_gene_variant 0.1
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.92
embA 4243460 c.228C>T synonymous_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408103 p.Gly34Trp missense_variant 0.94