TB-Profiler result

Run: SRR18715011
Summary

Run ID: SRR18715011

Sample name:

Date: 03-04-2023 20:14:50

Number of reads: 1702555

Percentage reads mapped: 99.46

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 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 1.0
mshA 576468 p.Val374Gly missense_variant 0.25
mshA 576483 p.Val379Gly missense_variant 0.3
mshA 576615 p.Arg423Pro missense_variant 0.22
mshA 576626 p.Thr427Pro missense_variant 0.22
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761482 p.Ala559Gly missense_variant 0.22
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
Rv1258c 1407079 c.261delC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102817 p.Leu76Val missense_variant 0.15
PPE35 2170065 p.Ala183Gly missense_variant 0.36
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.19
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087816 p.Cys333Gly missense_variant 0.16
fbiD 3339734 p.Ala206Gly missense_variant 0.75
fbiD 3339746 p.Ala210Gly missense_variant 0.4
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568431 c.249C>G synonymous_variant 0.29
rpoA 3878591 c.-84C>G upstream_gene_variant 0.29
rpoA 3878641 c.-134C>G upstream_gene_variant 0.43
embC 4240409 p.Pro183Ala missense_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4247016 p.Ser168Trp missense_variant 0.15
embB 4247020 c.507C>G synonymous_variant 0.4
embB 4248328 c.1815G>C synonymous_variant 0.19
whiB6 4338595 c.-75delG upstream_gene_variant 1.0