TB-Profiler result

Run: SRR4034113

Summary

Run ID: SRR4034113

Sample name:

Date: 04-04-2023 06:35:27

Number of reads: 634801

Percentage reads mapped: 99.5

Strain: lineage2.2.1

Drug-resistance: RR-TB


Download CSV Download TXT Download PDF Download JSON
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
rpoB 760663 p.Ala286Val missense_variant 0.11 rifampicin
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 5968 c.729G>A synonymous_variant 0.17
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7494 p.Arg65Cys missense_variant 0.2
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8835 p.Ala512Thr missense_variant 0.12
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
rpoB 761622 p.Gln606Lys missense_variant 0.25
rpoB 762675 p.Leu957Met missense_variant 0.18
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.86
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpL5 778243 p.Lys80Glu missense_variant 0.15
mmpS5 778541 c.362_364delAAG disruptive_inframe_deletion 0.12
mmpS5 778820 p.Arg29His missense_variant 0.14
mmpS5 779615 c.-710C>G upstream_gene_variant 0.94
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406215 c.1126C>T synonymous_variant 0.25
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472633 n.789delT non_coding_transcript_exon_variant 0.11
rrl 1474320 n.663G>A non_coding_transcript_exon_variant 0.17
fabG1 1673521 p.Gly28Trp missense_variant 0.12
inhA 1674277 p.Ala26Ser missense_variant 0.13
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834701 c.1161_1163delGGG disruptive_inframe_deletion 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154398 p.Thr572Ala missense_variant 0.18
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155351 p.Arg254His missense_variant 0.2
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169866 c.747G>C synonymous_variant 0.19
Rv1979c 2221997 p.Pro390Ser missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518463 c.351_352dupTG frameshift_variant 0.25
pepQ 2859608 p.Arg271Gly missense_variant 0.15
Rv2752c 3066292 c.-101A>G upstream_gene_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087457 p.Gly213Asp missense_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3640833 c.-702G>A upstream_gene_variant 0.12
fbiB 3642609 p.Ser359Gly missense_variant 0.13
clpC1 4038213 c.2491delG frameshift_variant 0.22
clpC1 4040457 p.Arg83His missense_variant 0.14
panD 4044320 c.-39C>T upstream_gene_variant 0.18
embC 4239756 c.-107C>G upstream_gene_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244525 c.1293G>A synonymous_variant 0.17
embB 4247384 p.His291Tyr missense_variant 0.11
embB 4248837 c.2328delC frameshift_variant 0.17
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268638 c.199C>T synonymous_variant 0.17
ethA 4326765 p.Ala237Thr missense_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