TB-Profiler result

Run: SRR18213705
Summary

Run ID: SRR18213705

Sample name:

Date: 03-04-2023 19:26:09

Number of reads: 3894760

Percentage reads mapped: 99.49

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 0.99
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 0.99
gyrA 9304 p.Gly668Asp missense_variant 0.97
gyrA 9596 c.2295G>T synonymous_variant 0.99
fgd1 490751 c.-32T>G upstream_gene_variant 0.25
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576489 p.Val381Gly missense_variant 0.15
mshA 576500 p.Ile385Val missense_variant 0.15
rpoB 759620 c.-187A>C upstream_gene_variant 0.2
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 0.96
rpoC 763031 c.-339T>C upstream_gene_variant 0.99
rpoC 764181 p.Asp271Gly missense_variant 0.96
rpoC 765734 p.Leu789Ala missense_variant 0.99
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
fbiC 1303016 p.Val29Gly missense_variant 0.22
fbiC 1304159 p.Val410Gly missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674952 p.Pro251Ala missense_variant 0.17
inhA 1674966 c.765T>G synonymous_variant 0.19
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.99
PPE35 2167926 p.Leu896Ser missense_variant 0.99
PPE35 2169866 c.747G>C synonymous_variant 0.14
PPE35 2170031 c.582C>T synonymous_variant 0.97
PPE35 2170769 c.-157C>T upstream_gene_variant 0.99
Rv1979c 2222000 p.Val389Met missense_variant 0.96
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 0.99
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.29
ahpC 2726341 p.Val50Gly missense_variant 0.3
ribD 2987323 p.Val162Gly missense_variant 0.19
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086900 c.81C>G synonymous_variant 0.96
fbiD 3339168 c.51G>A synonymous_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.26
clpC1 4038882 p.Gly608Ala missense_variant 0.18
embC 4242075 p.Arg738Gln missense_variant 0.99
embA 4242643 c.-590C>T upstream_gene_variant 0.98
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0