TB-Profiler result

Run: ERR4821192
Summary

Run ID: ERR4821192

Sample name:

Date: 01-04-2023 17:06:54

Number of reads: 1326782

Percentage reads mapped: 99.44

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491308 p.Ala176Ser missense_variant 0.5
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576259 p.Ser304Arg missense_variant 0.12
ccsA 620661 c.771C>A synonymous_variant 0.13
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304424 c.1494C>A synonymous_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472685 n.840G>T non_coding_transcript_exon_variant 0.25
rrl 1474525 n.868A>G non_coding_transcript_exon_variant 0.11
rrl 1475235 n.1578C>T non_coding_transcript_exon_variant 0.2
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.12
rrl 1476634 n.2977T>C non_coding_transcript_exon_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
pepQ 2859786 c.633G>T synonymous_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449042 p.Val180Gly missense_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475235 p.Leu410Gln missense_variant 0.15
whiB7 3568796 c.-117G>A upstream_gene_variant 0.12
Rv3236c 3613232 c.-116T>C upstream_gene_variant 0.13
fbiB 3641915 c.381C>T synonymous_variant 0.25
fbiB 3642062 p.Tyr176* stop_gained 0.14
rpoA 3878129 c.378delC frameshift_variant 0.1
clpC1 4038281 c.2424C>T synonymous_variant 0.11
clpC1 4038442 p.Ala755Thr missense_variant 0.12
embC 4242588 p.Gly909Val missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243746 p.Gly172Ser missense_variant 0.22
aftB 4267095 p.Pro581Arg missense_variant 0.11
aftB 4267544 c.1293T>C synonymous_variant 0.12
ubiA 4269031 p.Gly268Val missense_variant 0.14
ubiA 4269888 c.-55C>A upstream_gene_variant 0.12
whiB6 4338256 c.265delG frameshift_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0