TB-Profiler result

Run: SRR18715213
Summary

Run ID: SRR18715213

Sample name:

Date: 03-04-2023 20:24:22

Number of reads: 4069065

Percentage reads mapped: 99.7

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 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
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 1.0
mshA 575679 p.Asn111Ser missense_variant 0.99
mshA 576613 c.1266A>C synonymous_variant 0.3
mshA 576616 c.1269G>C synonymous_variant 0.23
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 764367 p.Gly333Ala missense_variant 0.25
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777140 c.1341G>A synonymous_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476058 n.2401T>G non_coding_transcript_exon_variant 0.14
fabG1 1673553 p.Asp38Glu missense_variant 0.23
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.14
PPE35 2170548 p.Gly22Glu missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.19
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3338933 c.-185C>T upstream_gene_variant 0.56
fbiD 3339734 p.Ala206Gly missense_variant 0.73
fbiD 3339751 p.Ala212Pro missense_variant 0.16
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475017 c.1011G>A synonymous_variant 0.99
rpoA 3878637 c.-130G>C upstream_gene_variant 0.4
rpoA 3878641 c.-134C>G upstream_gene_variant 0.77
embC 4240409 p.Pro183Ala missense_variant 0.16
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4247016 p.Ser168Trp missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0