TB-Profiler result

Run: SRR4033525
Summary

Run ID: SRR4033525

Sample name:

Date: 04-04-2023 06:09:06

Number of reads: 979939

Percentage reads mapped: 99.67

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
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
rpoB 760065 c.259C>T synonymous_variant 0.13
rpoB 763266 p.Ala1154Thr missense_variant 0.13
rpoC 763799 p.Arg144Cys missense_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775694 c.2787C>A synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
fabG1 1673567 p.Ala43Val missense_variant 0.14
rpsA 1834255 c.714C>T synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168863 c.1750C>T synonymous_variant 0.2
PPE35 2169320 p.Leu431Phe missense_variant 0.29
Rv1979c 2221724 p.Arg481Ser missense_variant 0.11
Rv1979c 2222404 c.760delA frameshift_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288751 p.Ser164Leu missense_variant 0.12
pncA 2289576 c.-335C>T upstream_gene_variant 0.13
pncA 2290142 c.-901G>A upstream_gene_variant 0.17
ahpC 2726338 p.Val49Gly missense_variant 0.5
folC 2747005 p.Ser198Arg missense_variant 0.1
folC 2747185 c.414G>A synonymous_variant 0.14
folC 2747352 p.Asp83Asn missense_variant 0.12
Rv2752c 3065349 c.843G>T synonymous_variant 0.11
thyA 3073806 c.666C>G synonymous_variant 0.2
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087293 c.474G>A synonymous_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474318 c.312C>T synonymous_variant 0.2
fbiA 3641144 p.Ala201Val missense_variant 0.11
alr 3840348 p.Ala358Val missense_variant 0.12
alr 3841078 p.Pro115Thr missense_variant 0.12
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.21
embA 4242374 c.-859C>A upstream_gene_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267409 c.1428C>T synonymous_variant 0.17
aftB 4268006 c.830dupG frameshift_variant 0.12
ubiA 4269232 p.Arg201His missense_variant 0.13
ubiA 4269896 c.-63G>A upstream_gene_variant 0.11
ethA 4327267 p.Trp69Cys missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0