TB-Profiler result

Run: SRR18213690
Summary

Run ID: SRR18213690

Sample name:

Date: 03-04-2023 19:25:18

Number of reads: 710146

Percentage reads mapped: 91.35

Strain: lineage4.3.1.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.1 Euro-American (LAM) LAM9 None 1.0
lineage4.3.1.1 Euro-American (LAM) LAM9 None 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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8771 c.1470C>T synonymous_variant 0.15
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 761695 p.Ile630Asn missense_variant 0.13
rpoB 761881 p.Ala692Val missense_variant 0.1
rpoC 763563 p.Tyr65Phe missense_variant 0.1
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 778753 p.Phe51Leu missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304997 p.Leu689Phe missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471660 n.-186G>A upstream_gene_variant 1.0
rrs 1472599 n.754G>A non_coding_transcript_exon_variant 0.4
inhA 1674296 p.Gln32Leu missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518322 p.Ser70Cys missense_variant 0.13
kasA 2519101 c.987C>T synonymous_variant 0.13
pepQ 2860223 p.Ser66Pro missense_variant 0.13
pepQ 2860253 p.Thr56Ala missense_variant 0.18
ribD 2987328 p.Ala164Ser missense_variant 0.25
thyX 3067195 c.751T>A stop_lost&splice_region_variant 0.15
thyX 3067966 c.-21G>A upstream_gene_variant 1.0
thyA 3073695 c.777T>G synonymous_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3840817 p.Lys202Glu missense_variant 0.13
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244823 p.Val531Leu missense_variant 0.13
embA 4245715 p.Leu828Pro missense_variant 0.13
embB 4246133 c.-381G>T upstream_gene_variant 0.12
ethR 4327309 c.-240G>C upstream_gene_variant 0.11
ethR 4327312 c.-237G>A upstream_gene_variant 0.11
ethA 4327317 p.Ile53Val missense_variant 0.11
ethR 4327321 c.-228G>C upstream_gene_variant 0.11
ethR 4327324 c.-225A>G upstream_gene_variant 0.12
ethR 4327327 c.-222A>G upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0