TB-Profiler result

Run: ERR9286012

Summary

Run ID: ERR9286012

Sample name:

Date: 02-04-2023 11:50:34

Number of reads: 5825319

Percentage reads mapped: 98.56

Strain: lineage4.8;lineage3

Drug-resistance: Sensitive


Download CSV Download TXT Download PDF Download JSON
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 0.23
lineage4 Euro-American LAM;T;S;X;H None 0.8
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.75
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 0.29
gyrA 8056 p.Arg252Leu missense_variant 0.26
gyrA 9304 p.Gly668Asp missense_variant 0.18
fgd1 491742 c.960T>C synonymous_variant 0.29
mshA 576108 p.Ala254Gly missense_variant 0.19
rpoB 759746 c.-61C>T upstream_gene_variant 0.28
rpoC 762434 c.-936T>G upstream_gene_variant 0.24
rpoC 763031 c.-339T>C upstream_gene_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 0.99
mmpL5 776100 p.Thr794Ile missense_variant 0.24
mmpS5 778919 c.-14A>C upstream_gene_variant 0.82
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.8
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.26
PPE35 2167926 p.Leu896Ser missense_variant 0.23
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.24
pncA 2289365 c.-125delC upstream_gene_variant 0.32
ahpC 2726105 c.-88G>A upstream_gene_variant 0.3
ald 3086788 c.-32T>C upstream_gene_variant 0.19
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.2
alr 3840764 c.657G>C synonymous_variant 0.71
embC 4242075 p.Arg738Gln missense_variant 0.26
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244629 p.Ile466Thr missense_variant 0.26
embB 4246584 p.Arg24Pro missense_variant 0.3
embB 4247028 p.Leu172Arg missense_variant 0.17
ethA 4328212 c.-740delC upstream_gene_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.29