TB-Profiler result

Run: ERR2229010
Summary

Run ID: ERR2229010

Sample name:

Date: 31-03-2023 16:30:16

Number of reads: 220498

Percentage reads mapped: 99.61

Strain: lineage4

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
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
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
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776739 p.Ile581Thr missense_variant 0.29
mmpL5 778540 c.-60G>C upstream_gene_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472499 n.654A>T non_coding_transcript_exon_variant 0.25
ndh 2102143 c.900C>A synonymous_variant 0.4
PPE35 2167833 p.Leu927Arg missense_variant 0.2
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169091 p.Val508Leu missense_variant 0.33
PPE35 2169269 c.1344A>G synonymous_variant 0.18
PPE35 2169272 c.1341C>G synonymous_variant 0.17
PPE35 2169278 c.1335T>C synonymous_variant 0.18
PPE35 2169281 c.1332T>G synonymous_variant 0.2
PPE35 2169287 c.1326T>C synonymous_variant 0.2
PPE35 2169293 c.1320T>C synonymous_variant 0.25
PPE35 2169753 p.Phe287Tyr missense_variant 0.5
PPE35 2170392 p.Gly74Ala missense_variant 0.14
PPE35 2170400 c.213G>C synonymous_variant 0.15
PPE35 2170704 c.-92C>A upstream_gene_variant 0.27
Rv1979c 2223235 c.-76_-72delAGGCC upstream_gene_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2859749 p.Ala224Thr missense_variant 0.5
Rv2752c 3066137 p.Thr19Ala missense_variant 0.29
fbiD 3339066 c.-52C>T upstream_gene_variant 0.18
fbiD 3339417 p.Glu100Asp missense_variant 0.4
alr 3841546 c.-126C>A upstream_gene_variant 0.19
rpoA 3878409 c.99C>A synonymous_variant 0.4
clpC1 4039645 p.His354Asp missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242991 c.-242C>G upstream_gene_variant 0.4
ethR 4328006 p.Ile153Thr missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407536 p.Thr223Pro missense_variant 0.22
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0