TB-Profiler result

Run: SRR10397214
Summary

Run ID: SRR10397214

Sample name:

Date: 02-04-2023 17:37:18

Number of reads: 1626585

Percentage reads mapped: 99.24

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 0.94
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
rpsL 781687 p.Lys43Arg missense_variant 0.93 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
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778107 p.Ser125Cys missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 0.97
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 0.97
PPE35 2168323 p.Ile764Phe missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 0.1
ald 3086788 c.-32T>C upstream_gene_variant 0.13
Rv3083 3448497 c.-7T>A upstream_gene_variant 0.57
Rv3083 3448500 c.-4A>G upstream_gene_variant 0.5
Rv3083 3448501 c.-3G>T upstream_gene_variant 0.5
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4328378 c.-905G>C upstream_gene_variant 0.99
whiB6 4338595 c.-75delG upstream_gene_variant 1.0