TB-Profiler result

Run: ERR266559
Summary

Run ID: ERR266559

Sample name:

Date: 31-03-2023 22:57:47

Number of reads: 4185114

Percentage reads mapped: 99.56

Strain: lineage3.1.2

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 0.98
lineage3.1 East-African-Indian Non-CAS1-Delhi RD750 1.0
lineage3.1.2 East-African-Indian CAS;CAS2 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 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 0.99
rpoC 762434 c.-936T>G upstream_gene_variant 0.98
rpoC 763031 c.-339T>C upstream_gene_variant 0.98
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.99
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472559 n.714T>C non_coding_transcript_exon_variant 0.25
rrl 1474402 n.745T>C non_coding_transcript_exon_variant 0.13
rrl 1475617 n.1960C>T non_coding_transcript_exon_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 0.99
tlyA 1918696 p.Ala253Pro missense_variant 0.99
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 0.99
PPE35 2168604 p.Pro670Leu missense_variant 1.0
Rv1979c 2223257 c.-93G>C upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.95
pncA 2289365 c.-125delC upstream_gene_variant 1.0
eis 2715432 c.-100C>T upstream_gene_variant 0.96
ahpC 2726105 c.-88G>A upstream_gene_variant 0.99
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475052 p.Asn349Thr missense_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.29
embC 4239842 c.-21C>A upstream_gene_variant 0.25
embC 4242075 p.Arg738Gln missense_variant 0.99
embC 4242425 p.Arg855Gly missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248241 c.1728C>G synonymous_variant 1.0
ethR 4327693 p.Asp49Asn missense_variant 0.99
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.96
gid 4408147 p.Ala19Val missense_variant 0.99