TB-Profiler result

Run: ERR2229468
Summary

Run ID: ERR2229468

Sample name:

Date: 31-03-2023 17:13:50

Number of reads: 1408223

Percentage reads mapped: 99.46

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
mshA 576108 p.Ala254Gly missense_variant 0.27
mshA 576488 p.Val381Leu missense_variant 0.11
ccsA 620069 p.Thr60Ile missense_variant 0.13
rpoB 760857 p.Val351Phe missense_variant 0.13
rpoC 763861 p.Asp164Glu missense_variant 0.16
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776018 c.2463G>C synonymous_variant 0.17
mmpL5 776021 c.2460G>C synonymous_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1303931 p.Pro334Leu missense_variant 0.12
fbiC 1303961 p.Arg344Leu missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474984 n.1327G>T non_coding_transcript_exon_variant 0.13
fabG1 1673380 c.-60C>G upstream_gene_variant 0.2
inhA 1674563 p.His121Arg missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.35
PPE35 2170053 p.Thr187Ser missense_variant 0.33
PPE35 2170415 c.198A>G synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518543 p.Gln143His missense_variant 0.12
kasA 2518606 c.492G>C synonymous_variant 0.13
folC 2746594 c.1005T>C synonymous_variant 0.11
folC 2746857 p.Glu248* stop_gained 0.17
folC 2746910 p.Thr230Ile missense_variant 0.12
pepQ 2859930 c.489G>T synonymous_variant 0.12
ribD 2986716 c.-123T>C upstream_gene_variant 0.12
Rv3236c 3612592 c.525C>T synonymous_variant 0.15
clpC1 4039645 p.His354Asp missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244285 c.1053G>A synonymous_variant 0.12
embA 4245699 p.Gly823Trp missense_variant 0.12
embA 4245770 p.Asn846Lys missense_variant 0.13
embB 4246555 c.42G>C synonymous_variant 0.18
embB 4246556 p.Ala15Pro missense_variant 0.19
embB 4246563 p.Leu17Trp missense_variant 0.12
embB 4246567 c.54G>T synonymous_variant 0.17
embB 4249746 p.Leu1078His missense_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0