TB-Profiler result

Run: SRR21277806
Summary

Run ID: SRR21277806

Sample name:

Date: 04-04-2023 01:44:13

Number of reads: 13428867

Percentage reads mapped: 96.97

Strain: lineage2.2.1

Drug-resistance: Sensitive

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
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 490682 c.-101C>A upstream_gene_variant 0.1
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575295 c.-53G>T upstream_gene_variant 0.13
mshA 575494 c.147G>T synonymous_variant 0.11
mshA 575671 c.324G>A synonymous_variant 0.11
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576220 c.873C>T synonymous_variant 0.1
mshA 576649 c.1302C>T synonymous_variant 0.11
ccsA 619716 c.-175G>A upstream_gene_variant 0.12
ccsA 619813 c.-78C>T upstream_gene_variant 0.2
ccsA 619817 c.-74C>T upstream_gene_variant 0.14
ccsA 619827 c.-64C>T upstream_gene_variant 0.1
ccsA 619950 c.60G>A synonymous_variant 0.14
ccsA 619988 p.Ala33Glu missense_variant 0.18
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 761673 p.Gly623Trp missense_variant 0.12
rpoB 762714 p.Val970Met missense_variant 0.17
rpoC 762764 c.-606G>T upstream_gene_variant 0.11
rpoC 763031 c.-339T>C upstream_gene_variant 0.99
rpoC 765298 c.1929G>T synonymous_variant 0.11
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 1303107 p.Cys59* stop_gained 0.11
fbiC 1304268 c.1338G>T synonymous_variant 0.31
fbiC 1305450 c.2520C>A synonymous_variant 0.13
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1407170 p.Phe57Leu missense_variant 0.19
Rv1258c 1407516 c.-176G>T upstream_gene_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833410 c.-132G>A upstream_gene_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834860 p.Ala440Glu missense_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 0.86
tlyA 1918068 c.129C>T synonymous_variant 0.29
tlyA 1918176 c.237C>A synonymous_variant 0.23
tlyA 1918273 p.Asp112Tyr missense_variant 0.14
tlyA 1918566 c.627C>A synonymous_variant 0.13
ndh 2101692 p.Glu451* stop_gained 0.13
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155757 p.Arg119Ser missense_variant 0.15
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170090 p.Pro175Thr missense_variant 0.27
PPE35 2170097 c.516G>A synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518707 p.Val198Ala missense_variant 0.12
kasA 2519006 p.Ala298Thr missense_variant 0.1
eis 2714903 c.430C>A synonymous_variant 0.12
folC 2746312 c.1287G>T synonymous_variant 0.16
folC 2746341 p.Ala420Thr missense_variant 0.17
folC 2746636 c.963C>A synonymous_variant 0.11
pepQ 2859605 p.Gly272Trp missense_variant 0.25
pepQ 2859921 c.498C>T synonymous_variant 0.33
pepQ 2860134 c.285G>T synonymous_variant 0.12
pepQ 2860146 c.273C>T synonymous_variant 0.5
ribD 2987300 c.462G>A synonymous_variant 0.1
thyX 3067290 p.Leu219His missense_variant 0.17
thyX 3067412 c.534C>T synonymous_variant 0.13
thyX 3067860 p.Ala29Val missense_variant 0.12
thyA 3074523 c.-52G>A upstream_gene_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087299 p.Met160Ile missense_variant 0.12
fbiD 3339319 p.Ala68Thr missense_variant 0.11
fbiD 3339325 p.Ala70Thr missense_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474927 c.921C>A synonymous_variant 0.11
fprA 3474931 p.Glu309Lys missense_variant 0.25
Rv3236c 3612813 p.Thr102Ala missense_variant 0.99
fbiB 3641427 c.-108C>T upstream_gene_variant 0.12
fbiB 3641629 p.Ala32Val missense_variant 0.12
alr 3841196 c.225G>A synonymous_variant 0.12
clpC1 4038187 p.Ala840Ser missense_variant 0.12
embC 4242369 p.Arg836His missense_variant 0.11
embC 4242408 p.Pro849Gln missense_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243887 p.Val219Met missense_variant 0.11
embA 4243965 p.Arg245Trp missense_variant 0.1
embA 4244578 p.Thr449Ile missense_variant 0.4
embA 4245705 p.His825Asn missense_variant 0.13
embB 4246654 c.141G>A synonymous_variant 0.1
embB 4246759 c.246C>A synonymous_variant 0.22
embB 4246800 p.Gly96Val missense_variant 0.11
embB 4247846 p.Gln445Lys missense_variant 0.12
embB 4247899 p.Met462Ile missense_variant 0.15
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267930 p.Arg303Trp missense_variant 0.21
aftB 4267949 c.888C>A synonymous_variant 0.15
ubiA 4270006 c.-173C>A upstream_gene_variant 0.12
ubiA 4270020 c.-187C>A upstream_gene_variant 0.1
ethA 4328420 c.-947C>T upstream_gene_variant 0.1
whiB6 4338272 p.Ser84Thr missense_variant 0.12
whiB6 4338311 p.Gly71Cys missense_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.99
gid 4407927 p.Glu92Asp missense_variant 1.0