TB-Profiler result

Run: SRR14782800
Summary

Run ID: SRR14782800

Sample name:

Date: 03-04-2023 11:39:30

Number of reads: 1634137

Percentage reads mapped: 99.63

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 7308 p.Asp3His missense_variant 0.23
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.16
mshA 576620 p.Ala425Pro missense_variant 0.14
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
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 1.0
PPE35 2168247 p.Leu789Arg missense_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.36
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289952 c.-711C>G upstream_gene_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.32
fbiD 3339734 p.Ala206Gly missense_variant 0.44
fbiD 3339746 p.Ala210Gly missense_variant 0.33
whiB7 3568428 c.252A>G synonymous_variant 0.22
rpoA 3878597 c.-90G>C upstream_gene_variant 0.2
rpoA 3878637 c.-130G>C upstream_gene_variant 0.33
rpoA 3878641 c.-134C>G upstream_gene_variant 0.47
clpC1 4039729 p.Asp326Asn missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0