TB-Profiler result

Run: ERR4799322
Summary

Run ID: ERR4799322

Sample name:

Date: 01-04-2023 09:02:06

Number of reads: 2732754

Percentage reads mapped: 99.63

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 0.98
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
gid 4407747 c.455delT frameshift_variant 0.96 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
gyrB 6518 p.Val427Met missense_variant 0.9
gyrB 7202 p.Asp655His missense_variant 0.91
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 0.99
gyrA 7871 c.570G>T synonymous_variant 0.91
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9679 p.Lys793Thr missense_variant 0.91
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 0.93
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 0.98
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.97
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474026 n.369C>A non_coding_transcript_exon_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2168794 p.Leu607Val missense_variant 0.5
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.92
pncA 2289365 c.-125delC upstream_gene_variant 0.94
ahpC 2726105 c.-88G>A upstream_gene_variant 0.95
ald 3086788 c.-32T>C upstream_gene_variant 0.98
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568857 c.-178C>T upstream_gene_variant 0.98
panD 4044023 c.259C>T synonymous_variant 0.85
embC 4240968 p.His369Leu missense_variant 0.98
embC 4242075 p.Arg738Gln missense_variant 0.92
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247419 c.906C>T synonymous_variant 0.96
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0