TB-Profiler result

Run: ERR11068521
Summary

Run ID: ERR11068521

Sample name:

Date: 06-04-2023 15:57:25

Number of reads: 3374551

Percentage reads mapped: 99.47

Strain: lineage2.2.1

Drug-resistance: Other

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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
lineage2 East-Asian Beijing RD105 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 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
rrs 1472753 n.908A>G non_coding_transcript_exon_variant 1.0 streptomycin
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 491742 c.960T>C synonymous_variant 1.0
mshA 575356 c.9T>C synonymous_variant 0.11
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576119 p.Ala258Pro missense_variant 0.31
ccsA 619863 c.-28C>T upstream_gene_variant 0.12
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763923 p.Glu185Gly missense_variant 0.11
rpoC 766645 p.Glu1092Asp missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304972 p.Thr681Ile missense_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1407022 p.Ala107Thr missense_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 0.99
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918593 c.654G>C synonymous_variant 0.12
ndh 2101711 c.1332G>A synonymous_variant 0.11
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170395 p.Ala73Val missense_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518506 p.Ala131Val missense_variant 1.0
eis 2715007 p.Ala109Val missense_variant 0.12
eis 2715571 c.-239G>A upstream_gene_variant 0.17
pepQ 2860123 p.Ser99Ile missense_variant 0.25
thyX 3067351 p.Arg199Trp missense_variant 0.13
thyA 3074519 c.-48C>T upstream_gene_variant 0.25
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568431 c.249C>G synonymous_variant 0.5
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3641949 p.Arg139Trp missense_variant 0.15
embC 4240620 p.Thr253Ile missense_variant 0.1
embC 4241676 p.Ala605Val missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
aftB 4267647 p.Asp397Gly missense_variant 1.0
whiB6 4338563 c.-42G>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0
gid 4408165 p.Gly13Glu missense_variant 1.0