TB-Profiler result

Run: SRR21277813
Summary

Run ID: SRR21277813

Sample name:

Date: 04-04-2023 01:45:28

Number of reads: 18255138

Percentage reads mapped: 97.89

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 490693 c.-90G>T upstream_gene_variant 0.12
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575390 p.Gln15Lys missense_variant 0.11
mshA 575500 c.153G>T synonymous_variant 0.15
mshA 575831 p.Gly162Ser missense_variant 0.1
mshA 576689 p.Tyr448His missense_variant 1.0
ccsA 619814 c.-77G>T upstream_gene_variant 0.15
ccsA 619970 p.Val27Asp missense_variant 0.11
rpoB 761666 c.1860G>A synonymous_variant 0.12
rpoB 762736 p.Ala977Asp missense_variant 0.11
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763910 p.Leu181Met missense_variant 0.1
rpoC 764562 p.Pro398Gln missense_variant 0.11
rpoC 765292 c.1923G>A synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 0.99
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777309 p.Gly391Val missense_variant 0.25
mmpL5 777360 p.Ala374Glu missense_variant 0.15
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801245 p.Arg146His missense_variant 0.11
fbiC 1303125 c.195G>A synonymous_variant 1.0
fbiC 1303910 p.Pro327Gln missense_variant 0.12
fbiC 1305454 p.Arg842Ser missense_variant 0.11
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1918209 c.270C>T synonymous_variant 0.11
tlyA 1918566 c.627C>A synonymous_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155744 p.Gly123Val missense_variant 0.25
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170089 p.Pro175Gln missense_variant 0.33
PPE35 2170412 c.201G>A synonymous_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714881 p.Ala151Asp missense_variant 0.19
eis 2714886 p.Phe149Leu missense_variant 0.12
eis 2715016 p.Arg106Leu missense_variant 0.12
eis 2715029 p.Ala102Thr missense_variant 0.14
eis 2715559 c.-227G>T upstream_gene_variant 0.12
folC 2746317 p.Asp428Tyr missense_variant 0.22
folC 2746350 p.Leu417Met missense_variant 0.12
folC 2746586 p.Arg338Leu missense_variant 0.18
folC 2746630 c.969C>A synonymous_variant 0.17
folC 2747331 p.His90Tyr missense_variant 0.11
folC 2747769 c.-171G>A upstream_gene_variant 0.11
folC 2747787 c.-189C>A upstream_gene_variant 0.14
pepQ 2859919 p.Arg167Leu missense_variant 0.12
pepQ 2859929 p.Arg164Trp missense_variant 0.13
pepQ 2860147 p.Gly91Val missense_variant 0.12
pepQ 2860149 c.270C>T synonymous_variant 0.15
pepQ 2860222 p.Ser66* stop_gained 0.11
pepQ 2860589 c.-171G>T upstream_gene_variant 0.4
ribD 2986641 c.-198G>T upstream_gene_variant 0.11
thyX 3067217 c.729C>T synonymous_variant 0.14
thyX 3067226 p.Glu240Asp missense_variant 0.13
thyX 3067427 c.519G>T synonymous_variant 0.12
thyX 3067542 p.Ala135Asp missense_variant 0.16
thyX 3067978 c.-33C>A upstream_gene_variant 0.16
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087285 p.Arg156Ser missense_variant 0.12
fbiD 3339318 c.201C>A synonymous_variant 0.16
fbiD 3339336 c.219C>T synonymous_variant 0.12
fbiD 3339746 p.Ala210Val missense_variant 0.22
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474918 c.912C>A synonymous_variant 0.1
fprA 3474928 p.Gly308Ser missense_variant 0.13
fprA 3474995 p.Pro330Leu missense_variant 0.16
Rv3236c 3612813 p.Thr102Ala missense_variant 0.98
fbiA 3640346 c.-196delA upstream_gene_variant 1.0
fbiB 3640879 c.-656C>T upstream_gene_variant 1.0
fbiB 3641364 c.-171G>A upstream_gene_variant 0.11
fbiB 3641903 c.369C>A synonymous_variant 0.12
fbiB 3642166 p.Ala211Glu missense_variant 0.13
fbiB 3642392 c.858G>T synonymous_variant 0.16
fbiB 3642394 p.Pro287Leu missense_variant 0.11
panD 4044479 c.-198C>T upstream_gene_variant 0.17
embC 4240586 p.Gly242Ser missense_variant 0.1
embC 4240989 p.Ala376Glu missense_variant 0.12
embC 4242172 c.2310C>A synonymous_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243480 p.Pro83His missense_variant 0.1
embA 4243610 c.378G>T synonymous_variant 0.15
embA 4243960 p.Arg243Leu missense_variant 0.21
embA 4244219 c.987C>A synonymous_variant 0.1
embA 4244240 p.Trp336Cys missense_variant 0.17
embA 4244305 p.Arg358Leu missense_variant 0.11
embA 4244602 p.Ala457Val missense_variant 0.11
embA 4245455 c.2223C>A synonymous_variant 0.12
embA 4245461 c.2229C>A synonymous_variant 0.1
embA 4245467 c.2235C>T synonymous_variant 0.12
embB 4246669 c.156C>A synonymous_variant 0.12
embB 4246672 c.159C>A synonymous_variant 0.2
embB 4246800 p.Gly96Val missense_variant 0.16
embB 4247020 c.507C>A synonymous_variant 0.11
embB 4247626 c.1113C>A synonymous_variant 0.14
embB 4247629 c.1116C>A synonymous_variant 0.18
embB 4247641 c.1128G>T synonymous_variant 0.25
embB 4247644 c.1131G>T synonymous_variant 0.11
embB 4247860 c.1347G>A synonymous_variant 0.13
embB 4247916 p.Arg468Leu missense_variant 0.13
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267925 c.912G>T synonymous_variant 0.24
ethA 4326474 p.Pro334Ala missense_variant 1.0
ethR 4328039 p.Arg164Leu missense_variant 0.12
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