TB-Profiler result

Run: SRR6855887
Summary

Run ID: SRR6855887

Sample name:

Date: 04-04-2023 17:49:07

Number of reads: 280148

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
lineage2.2 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 5707 c.468G>A synonymous_variant 0.2
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7783 p.Gln161Arg missense_variant 0.13
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
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304215 p.Asn429Asp missense_variant 0.15
fbiC 1304634 c.1704C>G synonymous_variant 0.29
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473109 n.1264T>C non_coding_transcript_exon_variant 0.14
inhA 1674243 c.42A>T synonymous_variant 0.17
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102378 p.Pro222Arg missense_variant 0.29
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155020 p.Ile364Met missense_variant 0.14
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169179 c.1434C>A synonymous_variant 0.2
PPE35 2170048 p.Leu189Val missense_variant 0.29
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290059 c.-818T>C upstream_gene_variant 0.22
pncA 2290093 c.-852G>A upstream_gene_variant 0.18
pncA 2290135 c.-894C>T upstream_gene_variant 0.22
eis 2715162 p.Glu57Asp missense_variant 0.15
eis 2715545 c.-213C>G upstream_gene_variant 0.22
ahpC 2725926 c.-267T>C upstream_gene_variant 0.33
folC 2747663 c.-65C>A upstream_gene_variant 0.18
ribD 2986971 p.Phe45Leu missense_variant 0.29
thyA 3073753 p.Glu240Gly missense_variant 0.22
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449512 p.Ile337Phe missense_variant 0.11
Rv3083 3449696 p.Lys398Met missense_variant 0.25
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3641074 p.Ala178Thr missense_variant 0.15
rpoA 3878152 p.His119Leu missense_variant 0.15
clpC1 4038304 p.Thr801Ala missense_variant 0.17
embC 4241745 p.Phe628Tyr missense_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243529 c.297T>C synonymous_variant 0.18
embB 4248607 c.2094G>T synonymous_variant 0.14
aftB 4267158 p.Thr560Met missense_variant 0.18
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethA 4326196 c.1278C>A 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