TB-Profiler result

Run: ERR2229642
Summary

Run ID: ERR2229642

Sample name:

Date: 31-03-2023 17:23:23

Number of reads: 1077486

Percentage reads mapped: 99.29

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
gyrA 7852 p.Gly184Val missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775988 c.2493G>T synonymous_variant 0.13
mmpL5 778973 c.-493T>C upstream_gene_variant 0.17
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
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475327 n.1670G>T non_coding_transcript_exon_variant 0.11
rrl 1475362 n.1706dupC non_coding_transcript_exon_variant 0.12
inhA 1674324 c.123C>T synonymous_variant 0.18
tlyA 1917819 c.-121C>T upstream_gene_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168235 p.Ala793Glu missense_variant 0.15
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169101 c.1512G>C synonymous_variant 0.12
PPE35 2169281 c.1332T>G synonymous_variant 0.11
PPE35 2169287 c.1326T>C synonymous_variant 0.18
PPE35 2169293 c.1320T>C synonymous_variant 0.15
PPE35 2169902 p.Leu237Phe missense_variant 0.21
PPE35 2169910 p.Asn235Tyr missense_variant 0.15
PPE35 2170048 p.Leu189Val missense_variant 0.37
PPE35 2170053 p.Thr187Ser missense_variant 0.38
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288992 p.Ser84Arg missense_variant 0.1
pncA 2290050 c.-809G>T upstream_gene_variant 0.14
folC 2746619 p.Arg327Leu missense_variant 0.12
pepQ 2860058 c.361T>C synonymous_variant 0.11
Rv2752c 3065945 p.His83Tyr missense_variant 0.14
thyX 3067307 c.639C>T synonymous_variant 0.17
fprA 3474245 p.Gly80Asp missense_variant 0.15
Rv3236c 3612679 c.438G>T synonymous_variant 0.2
alr 3841546 c.-126C>A upstream_gene_variant 0.16
clpC1 4039031 c.1674T>C synonymous_variant 0.16
clpC1 4040274 p.Gly144Val missense_variant 0.11
clpC1 4040316 p.Glu130Gly missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4266976 c.1860delG frameshift_variant 0.1
aftB 4267858 p.Ile327Leu missense_variant 0.17
aftB 4268697 p.Pro47Leu missense_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0