TB-Profiler result

Run: SRR16962450
Summary

Run ID: SRR16962450

Sample name:

Date: 03-04-2023 17:47:41

Number of reads: 984712

Percentage reads mapped: 99.7

Strain: lineage4.8

Drug-resistance: Sensitive

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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
gyrB 5472 p.Ala78Val missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.3
mshA 576721 p.Glu458Asp missense_variant 0.11
rpoC 763665 p.Ala99Val missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 0.96
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406427 p.Ile305Thr missense_variant 0.11
embR 1416941 p.Arg136His missense_variant 0.13
atpE 1460992 c.-53A>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 1475991 n.2334T>A non_coding_transcript_exon_variant 0.11
tlyA 1917959 p.Val7Ala missense_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168382 p.Phe744Tyr missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.5
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fbiA 3640418 c.-125C>T upstream_gene_variant 0.1
alr 3840764 c.657G>C synonymous_variant 1.0
rpoA 3878637 c.-130G>C upstream_gene_variant 0.29
rpoA 3878641 c.-134C>G upstream_gene_variant 0.25
clpC1 4040282 c.423G>A synonymous_variant 1.0
embC 4241411 p.Ile517Val missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro 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