TB-Profiler result

Run: SRR4033301

Summary

Run ID: SRR4033301

Sample name:

Date: 04-04-2023 05:58:51

Number of reads: 519073

Percentage reads mapped: 99.5

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 0.99
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.97
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 6688 c.-614C>T upstream_gene_variant 0.2
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 491608 p.Pro276Ser missense_variant 0.12
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575207 c.-141A>G upstream_gene_variant 0.29
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 0.91
rpoC 766356 p.Gly996Asp missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.67
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpR5 778385 c.-605C>T upstream_gene_variant 0.14
mmpR5 779001 p.Asn4Lys missense_variant 0.11
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305168 p.His746Gln missense_variant 0.25
Rv1258c 1406760 c.580_581insC frameshift_variant 0.88
embR 1416263 p.Thr362Met missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472466 n.621C>T non_coding_transcript_exon_variant 0.12
rrs 1472802 n.957A>T non_coding_transcript_exon_variant 0.15
rrl 1473956 n.299G>T non_coding_transcript_exon_variant 0.15
inhA 1674521 p.Pro107Gln missense_variant 0.2
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834407 p.Arg289His missense_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153933 p.Ala727Ser missense_variant 0.3
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.36
PPE35 2169770 c.842delA frameshift_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288894 c.348G>A synonymous_variant 0.2
folC 2746335 p.Gly422Ser missense_variant 0.18
folC 2747219 p.Ile127Thr missense_variant 0.12
pepQ 2860228 p.Ala64Asp missense_variant 0.22
thyX 3067705 p.Tyr81His missense_variant 0.4
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087472 p.Arg218His missense_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
clpC1 4039755 p.Leu317Pro missense_variant 0.29
clpC1 4040535 p.Glu57Gly missense_variant 0.17
panD 4043883 p.Asp133Glu missense_variant 0.15
embC 4240689 p.Leu276Pro missense_variant 0.29
embC 4240723 c.861C>T synonymous_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243371 p.Gln47* stop_gained 0.33
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4245428 c.2196C>T synonymous_variant 0.15
aftB 4267647 p.Asp397Gly missense_variant 1.0
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 0.92
gid 4408092 c.111A>C synonymous_variant 0.17