TB-Profiler result

Run: ERR495082
Summary

Run ID: ERR495082

Sample name:

Date: 01-04-2023 21:37:39

Number of reads: 1337667

Percentage reads mapped: 99.53

Strain: lineage4.3.2.1;lineage2.2.1.1

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
lineage2 East-Asian Beijing RD105 0.07
lineage4 Euro-American LAM;T;S;X;H None 0.95
lineage4.3 Euro-American (LAM) mainly-LAM None 0.84
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.12
lineage4.3.2 Euro-American (LAM) LAM3 None 0.82
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 0.87
lineage2.2.1.1 East-Asian (Beijing) Beijing-RD150 RD105;RD207;RD181;RD150 0.14
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 0.87
gyrA 7222 c.-80C>T upstream_gene_variant 0.84
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575907 p.Ala187Val missense_variant 0.5
ccsA 620625 p.Ile245Met missense_variant 0.18
rpoC 763031 c.-339T>C upstream_gene_variant 0.23
rpoC 764666 p.Gly433Ser missense_variant 0.13
rpoC 764995 c.1626C>G synonymous_variant 0.86
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.18
mmpL5 776182 p.Asp767Asn missense_variant 0.14
mmpS5 779615 c.-710C>G upstream_gene_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 0.57
rrs 1472341 n.496G>A non_coding_transcript_exon_variant 0.14
inhA 1674952 p.Pro251Ala missense_variant 0.17
rpsA 1834177 c.636A>C synonymous_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102670 p.Tyr125His missense_variant 0.1
katG 2154639 c.1473C>T synonymous_variant 0.29
katG 2154724 p.Arg463Leu missense_variant 0.22
PPE35 2167926 p.Leu896Ser missense_variant 0.23
Rv1979c 2223014 p.Tyr51Asn missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747626 c.-28G>A upstream_gene_variant 0.18
ribD 2987307 p.Ala157Pro missense_variant 0.29
Rv2752c 3065131 p.Ala354Val missense_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 0.75
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.95
fprA 3474172 p.Asp56Asn missense_variant 0.12
ddn 3986929 p.Tyr29Phe missense_variant 0.18
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038443 c.2262G>A synonymous_variant 0.13
clpC1 4040237 c.468C>A synonymous_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 0.12
embB 4249166 p.Gly885Ser missense_variant 0.25
embB 4249232 p.Pro907Ser missense_variant 0.12
aftB 4267647 p.Asp397Gly missense_variant 0.21
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 0.16
gid 4408156 p.Leu16Arg missense_variant 0.95