TB-Profiler result

Run: SRR3647352
Summary

Run ID: SRR3647352

Sample name:

Date: 04-04-2023 05:21:14

Number of reads: 7811905

Percentage reads mapped: 98.77

Strain: lineage4.9;La1.2

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
La1 M.bovis None None 0.1
La1.2 M.bovis None None 0.07
lineage4 Euro-American LAM;T;S;X;H None 0.91
lineage4.9 Euro-American (H37Rv-like) T1 None 0.9
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
pncA 2289073 p.His57Asp missense_variant 0.14 pyrazinamide
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
gyrB 6446 p.Ala403Ser missense_variant 0.13
gyrA 7362 p.Glu21Gln missense_variant 0.14
gyrA 7585 p.Ser95Thr missense_variant 0.13
gyrA 8741 c.1440C>T synonymous_variant 0.16
gyrA 9143 c.1842T>C synonymous_variant 0.14
gyrA 9304 p.Gly668Asp missense_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 0.12
mmpL5 776100 p.Thr794Ile missense_variant 0.15
mmpR5 779254 p.Arg89Trp missense_variant 0.87
rpsL 781395 c.-165T>C upstream_gene_variant 0.11
fbiC 1302899 c.-32A>G upstream_gene_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.14
kasA 2518132 c.18C>T synonymous_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 0.14
Rv3083 3448745 p.Ile81Ser missense_variant 0.1
Rv3083 3448783 p.Val94Ile missense_variant 0.12
clpC1 4038403 c.2302T>C synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 0.14
embA 4242970 c.-263C>T upstream_gene_variant 0.12
embB 4247173 c.660G>A synonymous_variant 0.12
aftB 4267858 p.Ile327Val missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 0.13