TB-Profiler result

Run: SRR6856022
Summary

Run ID: SRR6856022

Sample name:

Date: 04-04-2023 17:53:33

Number of reads: 652483

Percentage reads mapped: 99.73

Strain: lineage4.3.3;lineage4.1.2

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 0.62
lineage4.1 Euro-American T;X;H None 0.29
lineage4.1.2 Euro-American T;H None 0.34
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.68
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 8040 p.Gly247Ser missense_variant 0.84
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575909 p.Leu188Val missense_variant 0.49
rpoC 764995 c.1626C>G synonymous_variant 0.68
rpoC 765150 p.Gly594Glu missense_variant 0.26
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778346 c.-644G>A upstream_gene_variant 0.88
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302955 p.Ser9Ala missense_variant 0.26
Rv1258c 1407227 c.113delA frameshift_variant 0.11
Rv1258c 1407444 c.-104T>C upstream_gene_variant 0.12
embR 1417140 p.Ala70Ser missense_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673249 c.-191C>T upstream_gene_variant 0.31
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 0.61
folC 2747022 p.Val193Ile missense_variant 0.36
folC 2747225 p.Arg125Gln missense_variant 0.6
thyA 3073722 c.750C>T synonymous_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 0.6
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448894 p.Tyr131Asp missense_variant 0.23
Rv3083 3449642 p.Asn380Ser missense_variant 0.44
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3641164 p.Ile208Val missense_variant 0.26
clpC1 4038287 c.2418C>T synonymous_variant 0.65
embC 4241582 c.1723delT frameshift_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.31
embB 4249679 p.Asp1056His missense_variant 0.1
aftB 4268861 c.-25T>C upstream_gene_variant 0.26
whiB6 4338367 p.Leu52Gln missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.88