TB-Profiler result

Run: SRR4033488

Summary

Run ID: SRR4033488

Sample name:

Date: 04-04-2023 06:07:42

Number of reads: 1097087

Percentage reads mapped: 99.61

Strain: lineage4.3.2.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 0.99
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
gyrB 5520 p.Pro94Leu missense_variant 1.0
gyrB 6184 c.945C>T synonymous_variant 0.13
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
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 491191 p.Gly137Trp missense_variant 0.11
fgd1 491223 c.441C>A synonymous_variant 0.11
mshA 576542 p.Ala399Thr missense_variant 0.14
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 766444 c.3075C>A synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 779046 c.-566G>A upstream_gene_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781410 c.-150G>A upstream_gene_variant 0.15
rpsL 781873 p.Gln105Arg missense_variant 0.11
rplC 800638 c.-171T>C upstream_gene_variant 0.12
fbiC 1304736 p.Gln602His missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472253 n.408G>C non_coding_transcript_exon_variant 0.12
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrl 1475729 n.2072C>A non_coding_transcript_exon_variant 0.17
rrl 1475747 n.2092dupG non_coding_transcript_exon_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167784 c.2829C>T synonymous_variant 0.12
PPE35 2169320 p.Leu431Phe missense_variant 0.4
Rv1979c 2222073 c.1091delC frameshift_variant 0.11
Rv1979c 2222216 p.Val317Ile missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288760 p.Ala161Val missense_variant 0.12
kasA 2518070 c.-45C>A upstream_gene_variant 0.15
eis 2714686 p.Ala216Val missense_variant 0.12
ahpC 2726694 p.Leu168Ile missense_variant 0.11
Rv2752c 3066090 c.100_101delTT frameshift_variant 0.12
thyA 3073806 c.666C>G synonymous_variant 0.13
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086995 p.Gly59Asp missense_variant 0.18
fbiD 3339051 c.-67C>A upstream_gene_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474208 c.206delA frameshift_variant 0.11
fbiA 3640981 c.440delA frameshift_variant 0.12
fbiA 3641087 p.Thr182Met missense_variant 0.11
fbiB 3642715 p.Gly394Asp missense_variant 0.11
rpoA 3877552 p.Glu319Val missense_variant 0.12
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244294 c.1062G>A synonymous_variant 0.13
embA 4244886 c.1654C>T synonymous_variant 0.12
embB 4247358 c.847delG frameshift_variant 0.12
embB 4248579 p.Ala689Val missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0