TB-Profiler result

Run: SRR18665481
Summary

Run ID: SRR18665481

Sample name:

Date: 03-04-2023 19:59:45

Number of reads: 835298

Percentage reads mapped: 99.67

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
gyrA 7362 p.Glu21Gln missense_variant 1.0
fgd1 491310 c.528C>G synonymous_variant 0.29
fgd1 491313 c.531C>G synonymous_variant 0.22
mshA 576108 p.Ala254Gly missense_variant 0.16
rpoB 761105 c.1299C>T synonymous_variant 1.0
rpoB 762577 p.Gln924Leu missense_variant 0.11
rpoB 762732 p.Glu976Lys missense_variant 0.12
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
rrs 1471794 n.-52T>C upstream_gene_variant 1.0
rrs 1472231 n.386T>G non_coding_transcript_exon_variant 0.13
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474651 n.994C>A non_coding_transcript_exon_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3065369 p.Gln275* stop_gained 1.0
fprA 3474908 p.Arg301Gln missense_variant 0.12
fbiA 3640631 p.Ala30Val missense_variant 0.11
alr 3840764 c.657G>C synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246567 c.54_55insT frameshift_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407865 p.Glu113Gly missense_variant 0.11
gid 4408181 p.Ala8Ser missense_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0