TB-Profiler result

Run: SRR2101750
Summary

Run ID: SRR2101750

Sample name:

Date: 03-04-2023 23:53:42

Number of reads: 552244

Percentage reads mapped: 99.17

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 0.98
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.99
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.99
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 491246 p.Tyr155Cys missense_variant 0.11
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 0.97
mmpL5 776182 p.Asp767Asn missense_variant 0.97
mmpS5 779615 c.-710C>G upstream_gene_variant 0.91
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406755 p.Ala196Thr missense_variant 0.15
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833646 c.105T>C synonymous_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 0.97
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 2170268 c.345C>A synonymous_variant 0.18
Rv1979c 2222183 p.Thr328Ala missense_variant 0.98
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519245 c.1134delC frameshift_variant 0.12
ahpC 2726238 p.Thr16Ser missense_variant 0.11
folC 2747059 c.540T>C synonymous_variant 0.13
Rv2752c 3064533 c.1659G>T synonymous_variant 0.15
thyX 3067823 c.123G>T synonymous_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612109 c.1008T>C synonymous_variant 0.22
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
Rv3236c 3613011 p.Tyr36His missense_variant 0.11
embC 4240150 c.288A>T synonymous_variant 0.13
embC 4240857 p.Ala332Val missense_variant 0.12
embC 4240929 p.Trp356Ser missense_variant 0.15
embC 4241648 c.1786T>C synonymous_variant 0.2
embC 4242395 p.Pro845Thr missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243386 p.Asp52Asn missense_variant 0.11
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4245307 p.Val692Ala missense_variant 0.11
embA 4246120 p.Val963Glu missense_variant 0.13
embA 4246414 p.His1061Arg missense_variant 0.1
embB 4246857 p.Phe115Tyr missense_variant 0.15
aftB 4267197 p.Tyr547Cys missense_variant 0.12
aftB 4267525 p.Val438Leu missense_variant 0.12
aftB 4267647 p.Asp397Gly missense_variant 1.0
whiB6 4338219 c.303C>T synonymous_variant 0.12
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