TB-Profiler result

Run: SRR6832313
Summary

Run ID: SRR6832313

Sample name:

Date: 04-04-2023 17:21:30

Number of reads: 763799

Percentage reads mapped: 99.53

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
lineage2.2.1 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 5071 c.-169C>A upstream_gene_variant 0.11
gyrB 5259 p.Lys7Arg missense_variant 0.29
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
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764778 c.1418_1436delAGCGCATGGTGGAGCGCCA frameshift_variant 0.2
rpoC 766645 p.Glu1092Asp missense_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
mmpL5 777938 c.543T>A synonymous_variant 0.12
mmpS5 778498 c.407delA frameshift_variant 0.12
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305461 p.Ala844Val missense_variant 0.2
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476320 n.2663A>G non_coding_transcript_exon_variant 0.13
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917813 c.-127C>T upstream_gene_variant 0.2
tlyA 1917849 c.-91G>T upstream_gene_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103225 c.-183A>C upstream_gene_variant 0.25
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155679 p.Arg145Cys missense_variant 0.2
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169724 p.Ile297Phe missense_variant 0.15
Rv1979c 2222239 p.Leu309Pro missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288888 p.Asn118Lys missense_variant 0.14
ahpC 2726338 p.Val49Gly missense_variant 0.4
Rv2752c 3065318 p.Ala292Thr missense_variant 0.14
Rv2752c 3065881 p.Gly104Asp missense_variant 0.13
thyA 3073897 p.Ala192Gly missense_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449827 p.Gly442Ser missense_variant 0.12
Rv3083 3449851 p.Ile450Val missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3640625 p.Phe28Cys missense_variant 0.14
fbiA 3640724 p.Asp61Val missense_variant 0.12
alr 3841529 c.-110delA upstream_gene_variant 0.2
rpoA 3877945 p.Asp188Gly missense_variant 0.2
ddn 3986825 c.-19G>C upstream_gene_variant 0.15
clpC1 4040318 c.387C>T synonymous_variant 0.11
embC 4240701 p.Val280Gly missense_variant 0.22
embC 4240733 p.Thr291Ser missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4245151 p.Val640Asp missense_variant 0.25
embB 4248073 c.1560C>A synonymous_variant 0.13
embB 4249594 c.3081G>A synonymous_variant 0.22
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268170 p.Ala223Ser missense_variant 0.29
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