TB-Profiler result

Run: SRR14520102
Summary

Run ID: SRR14520102

Sample name:

Date: 03-04-2023 10:57:14

Number of reads: 4754226

Percentage reads mapped: 99.67

Strain: lineage4.8

Drug-resistance: Other

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
gid 4407851 c.351delG frameshift_variant 1.0 streptomycin
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 0.21
mmpL5 775639 p.Ile948Val missense_variant 1.0
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 1.0
rrl 1474125 n.468C>T non_coding_transcript_exon_variant 1.0
rpsA 1834770 p.Gln410Arg missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168863 c.1750C>T synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290014 c.-773T>C upstream_gene_variant 1.0
eis 2715491 c.-159G>T upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.27
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fprA 3475012 p.Asp336Asn missense_variant 1.0
alr 3841546 c.-126C>A upstream_gene_variant 1.0
alr 3841612 c.-193_-192insC upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.32
embB 4247028 p.Leu172Arg missense_variant 0.16
aftB 4269087 c.-251G>A upstream_gene_variant 1.0
ethA 4326582 p.Asn298His missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0