TB-Profiler result

Run: SRR6896493

Summary

Run ID: SRR6896493

Sample name:

Date: 04-04-2023 18:07:51

Number of reads: 491095

Percentage reads mapped: 99.59

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 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
mshA 576331 c.984G>T synonymous_variant 0.12
ccsA 619717 c.-174G>T upstream_gene_variant 0.12
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 761516 c.1710G>C synonymous_variant 0.2
rpoB 761594 c.1788C>A synonymous_variant 0.2
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766379 p.Gly1004Ser missense_variant 0.12
rpoC 766815 p.Ile1149Thr missense_variant 0.11
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
Rv1258c 1406947 p.Ala132Thr missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473548 n.-110T>C upstream_gene_variant 0.1
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918090 p.Ala51Ser missense_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289430 c.-189C>T upstream_gene_variant 0.11
kasA 2518561 c.447T>G synonymous_variant 0.17
pepQ 2859564 c.854delG frameshift_variant 0.1
pepQ 2859647 p.Gln258Glu missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087304 p.Gly162Val missense_variant 0.12
fbiD 3339615 c.498G>A synonymous_variant 0.13
Rv3083 3448961 c.462delC frameshift_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568647 p.Pro11Thr missense_variant 0.12
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
panD 4044150 c.132A>G synonymous_variant 0.14
embC 4242606 p.Met915Thr missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242756 p.Ile965Asn missense_variant 0.12
embC 4243095 p.Gly1078Glu missense_variant 0.11
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244789 c.1557C>T synonymous_variant 0.13
embB 4246508 c.-6G>C upstream_gene_variant 0.11
embB 4247578 c.1065G>A synonymous_variant 0.13
embB 4248315 p.Ala601Asp missense_variant 0.11
embB 4248826 c.2313G>C synonymous_variant 0.12
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267828 p.Arg337Trp missense_variant 0.25
aftB 4268303 c.534C>T synonymous_variant 0.11
aftB 4268533 c.303delG frameshift_variant 0.22
aftB 4268776 c.60delG frameshift_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407620 p.Tyr195His missense_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0