TB-Profiler result

Run: SRR14801726
Summary

Run ID: SRR14801726

Sample name:

Date: 03-04-2023 11:59:47

Number of reads: 6623225

Percentage reads mapped: 99.51

Strain: lineage4

Drug-resistance: Other

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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
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
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
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 7892 c.591G>A synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.15
mshA 576768 p.Pro474Leu missense_variant 0.99
ccsA 620619 c.729G>A synonymous_variant 1.0
rpoC 764367 p.Gly333Ala missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778090 p.Gly131Arg missense_variant 0.99
rpsL 781395 c.-165T>C upstream_gene_variant 0.99
fbiC 1304610 c.1680C>T synonymous_variant 0.99
embR 1416966 p.Ala128Pro missense_variant 0.97
rrs 1471659 n.-187C>T upstream_gene_variant 0.99
rrl 1474074 n.417C>T non_coding_transcript_exon_variant 1.0
fabG1 1673553 p.Asp38Glu missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.37
fbiD 3339734 p.Ala206Gly missense_variant 0.72
fbiD 3339746 p.Ala210Gly missense_variant 0.22
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878575 c.-68C>T upstream_gene_variant 1.0
rpoA 3878613 c.-106A>C upstream_gene_variant 0.21
rpoA 3878641 c.-134C>G upstream_gene_variant 0.14
clpC1 4038318 p.Pro796Leu missense_variant 0.98
clpC1 4040546 c.159G>A synonymous_variant 0.99
embC 4240409 p.Pro183Ala missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242835 c.-398C>T upstream_gene_variant 0.97
embB 4248324 p.Ala604Gly missense_variant 0.21
aftB 4268061 p.Asn259Thr missense_variant 0.98
ethA 4327310 p.Ser55Cys missense_variant 0.98
whiB6 4338595 c.-75delG upstream_gene_variant 1.0