Mimulus v. tomato

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Note: evaluation of tomato is difficult as its polyploidy is not a string tetraploidy or hexaploidy: Tomato genome

Whole genome syntenic dotplots

http://genomevolution.org/r/518r

High-resolution analysis of syntenic regions with GEvo

Fractionation appears to be independent among intragenomic syntenic regions

http://genomevolution.org/r/51re
http://genomevolution.org/r/51mk

Ks histograms of syntenic gene pairs

No syntenic depth screening

Org 1 Org 2 Full Hist Banded Hist Notes
Mimulus guttatus Solanum lycopersicum (tomato) Master 8156 12289.CDS-CDS.last.dag.all.go D20 g10 A5.aligncoords.gcoords ct0.w800.ass.gene.s.ks.sr.cs1.csoS.min-0.4.log.nsd.hist.png http://genomevolution.org/r/51li Master 8156 12289.CDS-CDS.last.dag.all.go D20 g10 A5.aligncoords.gcoords ct0.w800.ass.gene.s.ks.sr.cs1.csoS.min-0.2.max1.log.nsd.hist.png]http://genomevolution.org/r/51up
Solanum lycopersicum (tomato) Solanum lycopersicum (tomato) Master 12289 12289.CDS-CDS.lastz.dag.all.go D20 g10 A5.aligncoords.gcoords ct0.w1000.gene.ks.sr.cs1.csoN.log.nsd.hist.png http://genomevolution.org/r/51uq Master 12289 12289.CDS-CDS.lastz.dag.all.go D20 g10 A5.aligncoords.gcoords ct0.w1000.gene.ks.sr.cs1.csoN.min-.3.max1.log.nsd.hist.png http://genomevolution.org/r/4tpr
Mimulus guttatus Mimulus guttatus Master 8156 8156.CDS-CDS.last.dag.all.go D20 g10 A5.aligncoords.gcoords ct0.w800.ass.gene.s.ks.sr.cs1.csoS.log.nsd.hist.png http://genomevolution.org/r/51v0 Master 8156 8156.CDS-CDS.last.dag.all.go D20 g10 A5.aligncoords.gcoords ct0.w800.ass.gene.s.ks.sr.cs1.csoS.min-1.max1.log.nsd.hist.png http://genomevolution.org/r/51v1

1:1 syntenic depth screening (identified primarily orthologous syntenic gene pairs

Org 1 Org 2 Full Hist Banded Hist Notes
Mimulus guttatus Solanum lycopersicum (tomato) Master 8156 12289.CDS-CDS.last.dag.all.go D20 g10 A5.aligncoords.qac1.1.40.gcoords ct0.w800.gene.s.ks.sr.cs1.csoS.min-.4.log.nsd.hist.png http://genomevolution.org/r/51uv Master 8156 12289.CDS-CDS.last.dag.all.go D20 g10 A5.aligncoords.qac1.1.40.gcoords ct0.w800.gene.s.ks.sr.cs1.csoS.min-.4.max1.log.nsd.hist.png http://genomevolution.org/r/51uw Ortholog screening 1:1 Syntenic depth
Solanum lycopersicum (tomato) Solanum lycopersicum (tomato) Master 12289 12289.CDS-CDS.lastz.dag.all.go D20 g10 A5.aligncoords.Dm80.ma1.qac1.1.20.gcoords ct0.w1000.gene.ks.sr.cs1.csoN.log.nsd.hist.png http://genomevolution.org/r/51v4 Master 12289 12289.CDS-CDS.lastz.dag.all.go D20 g10 A5.aligncoords.Dm80.ma1.qac1.1.20.gcoords ct0.w1000.gene.ks.sr.cs1.csoN.min-.4.max1.log.nsd.hist.png http://genomevolution.org/r/51v6 Ortholog screening 1:1 Syntenic depth
Mimulus guttatus Mimulus guttatus Master 8156 8156.CDS-CDS.last.dag.all.go D20 g10 A5.aligncoords.qac1.1.40.gcoords ct0.w800.gene.s.ks.sr.cs1.csoS.log.nsd.hist.png http://genomevolution.org/r/51v5 Master 8156 8156.CDS-CDS.last.dag.all.go D20 g10 A5.aligncoords.qac1.1.40.gcoords ct0.w800.gene.s.ks.sr.cs1.csoS.min-1.max1.log.nsd.hist.png http://genomevolution.org/r/51v3 Ortholog screening 1:1 Syntenic depth


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