TB-Profiler result

Run: SRR2101648
Summary

Run ID: SRR2101648

Sample name:

Date: 03-04-2023 23:50:17

Number of reads: 473222

Percentage reads mapped: 99.61

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
gyrB 6162 p.Ile308Thr missense_variant 0.11
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 576358 c.1011C>A synonymous_variant 0.17
ccsA 620082 c.192G>T synonymous_variant 0.12
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 765274 c.1905G>T synonymous_variant 0.11
rpoC 767275 c.3906T>C synonymous_variant 0.12
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 776952 p.Leu510Arg missense_variant 0.1
mmpR5 779020 p.Gly11Arg missense_variant 0.1
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
rpsA 1834176 p.Arg212His missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102225 p.Cys273Ser missense_variant 0.13
ndh 2102759 p.Ala95Asp missense_variant 0.1
ndh 2103004 c.39T>C synonymous_variant 0.15
katG 2154128 p.Leu662Phe missense_variant 0.17
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169651 p.Leu321Ser missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518843 c.729T>A synonymous_variant 0.18
folC 2746622 p.Val326Ala missense_variant 0.12
folC 2747167 p.Lys144Asn missense_variant 1.0
pepQ 2860387 p.Lys11Arg missense_variant 0.15
ald 3086739 c.-81G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086807 c.-13G>A upstream_gene_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243180 c.-53C>A upstream_gene_variant 0.11
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4245826 p.Asp865Gly missense_variant 0.1
aftB 4266983 c.1854C>G synonymous_variant 1.0
aftB 4267315 p.Ile508Val missense_variant 0.14
aftB 4267647 p.Asp397Gly missense_variant 1.0
ubiA 4269080 p.Met252Val missense_variant 0.1
ethA 4327332 p.Phe48Leu missense_variant 0.12
whiB6 4338253 p.Phe90Pro missense_variant 0.11
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