TB-Profiler result

Run: SRR5073693
Summary

Run ID: SRR5073693

Sample name:

Date: 04-04-2023 08:48:22

Number of reads: 517905

Percentage reads mapped: 99.25

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
lineage4.1.2.1 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 0.95
mshA 576396 p.Ser350Asn missense_variant 0.15
mshA 576398 p.Tyr351Asp missense_variant 0.15
mshA 576751 p.Lys468Asn missense_variant 0.33
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 763358 c.-12A>C upstream_gene_variant 0.12
rpoC 765150 p.Gly594Glu missense_variant 0.94
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 2155573 p.Thr180Met missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
pepQ 2860347 p.Ile24Met missense_variant 0.11
thyX 3067985 c.-40C>T upstream_gene_variant 0.1
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339412 p.Ala99Pro missense_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474825 c.819C>T synonymous_variant 1.0
alr 3840206 c.1215T>G synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4245360 p.Val710Met missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408009 p.Val65Gly missense_variant 1.0