TB-Profiler result

Run: SRR4033369

Summary

Run ID: SRR4033369

Sample name:

Date: 04-04-2023 06:02:37

Number of reads: 1050855

Percentage reads mapped: 99.54

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
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 491290 p.Val170Met missense_variant 0.15
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575441 p.Gly32Trp missense_variant 0.15
mshA 575907 p.Ala187Val missense_variant 0.92
mshA 576616 c.1269G>A synonymous_variant 0.29
mshA 576777 p.Gly477Val missense_variant 0.12
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 759870 c.65delC frameshift_variant 0.11
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 765148 c.1779C>G synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775873 p.Ile870Val missense_variant 0.12
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 0.96
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406478 p.Arg288Leu missense_variant 0.17
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1407095 c.246G>A synonymous_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474423 n.766G>A non_coding_transcript_exon_variant 0.12
inhA 1674952 p.Pro251Ala missense_variant 0.18
rpsA 1833576 p.Ala12Val missense_variant 0.13
rpsA 1834177 c.636A>C synonymous_variant 1.0
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
katG 2156470 c.-360delT upstream_gene_variant 0.15
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.3
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714280 p.Met351Ile missense_variant 0.17
Rv2752c 3067076 c.-885A>T upstream_gene_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339047 c.-71G>T upstream_gene_variant 0.11
Rv3083 3448856 p.Val118Asp missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474008 c.2T>A start_lost 0.18
fprA 3474143 p.Trp46Leu missense_variant 0.17
whiB7 3568777 c.-98C>T upstream_gene_variant 0.25
Rv3236c 3612184 c.933C>T synonymous_variant 0.2
Rv3236c 3612219 p.Val300Leu missense_variant 0.18
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3642371 c.837G>T synonymous_variant 0.17
fbiB 3642652 p.Phe373Ser missense_variant 0.11
panD 4043925 p.His119Gln missense_variant 0.2
embC 4240309 c.447C>T synonymous_variant 0.1
embC 4240914 p.Met351Thr missense_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242896 p.Leu1012Met missense_variant 0.25
embA 4243460 c.228C>T synonymous_variant 1.0
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethR 4327767 c.220delA frameshift_variant 0.11
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