TB-Profiler result

Run: SRR21277760

Summary

Run ID: SRR21277760

Sample name:

Date: 04-04-2023 01:39:25

Number of reads: 8737676

Percentage reads mapped: 99.3

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 1.0
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 0.99
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575427 p.Ser27* stop_gained 0.25
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 619714 c.-177G>A upstream_gene_variant 0.12
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 761672 c.1866C>A synonymous_variant 0.11
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
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
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 1476202 n.2545G>A non_coding_transcript_exon_variant 1.0
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
katG 2155766 p.His116Asn missense_variant 0.11
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518120 c.6T>C synonymous_variant 0.99
kasA 2519054 p.Ala314Thr missense_variant 0.15
eis 2715578 c.-246C>T upstream_gene_variant 0.2
folC 2746312 c.1287G>T synonymous_variant 0.1
folC 2746346 p.Ala418Glu missense_variant 0.11
folC 2746636 c.963C>A synonymous_variant 0.11
pepQ 2859605 p.Gly272Trp missense_variant 0.14
pepQ 2859932 p.Leu163Met missense_variant 0.1
ribD 2987317 p.Ala160Asp missense_variant 0.1
thyX 3067298 c.648G>A synonymous_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339722 p.Gly202Val missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474945 c.939G>A synonymous_variant 0.12
Rv3236c 3612813 p.Thr102Ala missense_variant 0.99
alr 3841042 p.Asp127Tyr missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242686 p.Gln942* stop_gained 0.17
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244876 c.1644G>A synonymous_variant 0.1
embB 4247860 c.1347G>A synonymous_variant 0.1
embB 4247895 p.Pro461Leu missense_variant 0.15
embB 4248607 c.2094G>T synonymous_variant 0.14
aftB 4267647 p.Asp397Gly missense_variant 1.0
whiB6 4338365 p.Cys53Gly 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