TB-Profiler result

Run: SRR6982464
Summary

Run ID: SRR6982464

Sample name:

Date: 04-04-2023 18:38:16

Number of reads: 774587

Percentage reads mapped: 99.55

Strain: lineage2.2.1

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
lineage2 East-Asian Beijing RD105 0.99
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 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
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 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_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
mmpL5 778200 p.Val94Ala missense_variant 0.12
mmpL5 778229 p.Glu84Asp missense_variant 0.1
mmpS5 779615 c.-710C>G upstream_gene_variant 0.97
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475751 n.2094C>T non_coding_transcript_exon_variant 0.1
fabG1 1673648 p.Arg70His missense_variant 0.1
rpsA 1833359 c.-183T>C upstream_gene_variant 0.14
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167945 p.Ser890Pro missense_variant 0.12
PPE35 2170011 p.Arg201Pro missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518568 p.Ala152Ser missense_variant 0.15
eis 2715465 c.-133G>T upstream_gene_variant 0.14
eis 2715469 c.-137T>C upstream_gene_variant 0.14
eis 2715473 c.-141A>G upstream_gene_variant 0.13
pepQ 2860598 c.-180C>A upstream_gene_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339166 p.Lys17* stop_gained 0.13
fbiD 3339499 p.Ala128Ser missense_variant 0.11
Rv3083 3448399 c.-105T>A upstream_gene_variant 0.1
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
clpC1 4039037 c.1667delG frameshift_variant 0.11
clpC1 4039138 c.1565_1566delAG frameshift_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243429 p.Ala66Val missense_variant 0.12
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243690 c.461delG frameshift_variant 0.15
embA 4243856 c.624C>A synonymous_variant 0.14
aftB 4267647 p.Asp397Gly missense_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