TreeBASE Search-Analyses for study 16372

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Analyses for Study 16372

Citation title: "Sequence variations and molecular phylogenetic analysis of endopolygalacturonase genes in Venturia nashicola, the causal agent of scab on Japanese and Chinese pears".

Study name: "Sequence variations and molecular phylogenetic analysis of endopolygalacturonase genes in Venturia nashicola, the causal agent of scab on Japanese and Chinese pears".

This study is part of submission 16372 (Status: Published).

Analyses

Analysis 1

Analysis details

Name

Input data

1 Input object(s)

Analysis step

ML --

Step details

Name

Software used

Name
Algorithm
Commands
begin paup; Factory; set maxtrees=10000; log file=MPITS.log; set increase=auto; set autoinc=200; set criterion=likelihood; pset gapmode=missing; Lset Base=(0.2371 0.2986 0.2234) Nst=2 TRatio=1.6103 Rates=gamma Shape=1.2722 Pinvar=0; dset distance=ml; hsearch start=NJ swap=TBR multrees=yes steepest=no rstatus=yes; savetrees brlens file=PG.tre; contree /majrule save file=CONTREE_PG.tre; bootstrap nreps=100 search=heuristic treefile=PGTT.tre / addseq=random nreps=10 swap=TBR; savetrees from=1 to=1 file=PGcon.tre savebootp=nodelabels; scorefile=Ml.scores; log stop; end

Output data

1 Output object(s)

Analysis 2

Analysis details

Name

Input data

1 Input object(s)

Analysis step

MP --

Output data