TB-Profiler result

Run: SRR16058604
Summary

Run ID: SRR16058604

Sample name:

Date: 03-04-2023 15:56:58

Number of reads: 2226937

Percentage reads mapped: 99.62

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 7017 p.Ala593Val missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
rpoC 766085 p.Pro906Ala missense_variant 0.98
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
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 1474489 n.832T>G non_coding_transcript_exon_variant 0.19
rrl 1475495 n.1838A>C non_coding_transcript_exon_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518051 c.-64A>G upstream_gene_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.21
pepQ 2860597 c.-179A>C upstream_gene_variant 0.21
fbiD 3339734 p.Ala206Gly missense_variant 0.3
Rv3083 3448497 c.-7T>A upstream_gene_variant 0.75
whiB7 3568428 c.252A>C synonymous_variant 0.5
whiB7 3568503 c.177G>T synonymous_variant 0.98
alr 3840764 c.657G>C synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246532 c.19A>C synonymous_variant 0.29
embB 4246584 p.Arg24Pro missense_variant 0.25
embB 4247151 p.Arg213Gln missense_variant 1.0
aftB 4268619 p.Val73Gly missense_variant 0.16
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0