Global alignment files:

Command lines used to obtain alignments are:

mafft --retree 10 in.fasta > out.fasta
trimal -in in.fasta -out out.fasta -htmlout out.html -gt 0.8 -st 0.001 -cons 5


Whole LRR-kinase full alignment (fasta)
Whole LRR-kinase cleaning report (html)
Whole LRR-kinase trimed alignment (fasta)

Sub-group alignment files:

Command lines used to obtain alignments are:

mafft --maxiterate 100 --localpair in.fasta > out.fasta
trimal -in in.fasta -out out.fasta -htmlout out.html -gt 0.2


SG_I full alignment (fasta)
SG_I cleaning report (html)
SG_I trimed alignment (fasta)

SG_II and SG_VIII-2 group full alignment (fasta)
SG_II and SG_VIII-2 group cleaning report (html)
SG_II and SG_VIII-2 group trimed alignment (fasta)

SG_III full alignment (fasta)
SG_III cleaning report (html)
SG_III trimed alignment (fasta)

SG_IV full alignment (fasta)
SG_IV cleaning report (html)
SG_IV trimed alignment (fasta)

SG_V full alignment (fasta)
SG_V cleaning report (html)
SG_V trimed alignment (fasta)

SG_VI full alignment (fasta)
SG_VI cleaning report (html)
SG_VI trimed alignment (fasta)

SG_VIIa full alignment (fasta)
SG_VIIa cleaning report (html)
SG_VIIa trimed alignment (fasta)

SG_VIIb full alignment (fasta)
SG_VIIb cleaning report (html)
SG_VIIb trimed alignment (fasta)

SG_VIII-1 full alignment (fasta)
SG_VIII-1 cleaning report (html)
SG_VIII-1 trimed alignment (fasta)

SG_IX full alignment (fasta)
SG_IX cleaning report (html)
SG_IX trimed alignment (fasta)

SG_Xa full alignment (fasta)
SG_Xa cleaning report (html)
SG_Xa trimed alignment (fasta)

SG_Xb full alignment (fasta)
SG_Xb cleaning report (html)
SG_Xb trimed alignment (fasta)

SG_XI full alignment (fasta)
SG_XI cleaning report (html)
SG_XI trimed alignment (fasta)

SG_XIIa full alignment (fasta)
SG_XIIa cleaning report (html)
SG_XIIa trimed alignment (fasta)

SG_XIIb and SG_XV group full alignment (fasta)
SG_XIIb and SG_XV group cleaning report (html)
SG_XIIb and SG_XV group trimed alignment (fasta)

SG_XIIIa full alignment (fasta)
SG_XIIIa cleaning report (html)
SG_XIIIa trimed alignment (fasta)

SG_XIIIb full alignment (fasta)
SG_XIIIb cleaning report (html)
SG_XIIIb trimed alignment (fasta)

SG_XIV full alignment (fasta)
SG_XIV cleaning report (html)
SG_XIV trimed alignment (fasta)

Manually curated alignments for positive selection analyses

UP clusters :

cluster_1 : nucleic / proteic

cluster_2 : nucleic / proteic

cluster_3 : nucleic / proteic

cluster_4 : nucleic / proteic

cluster_5 : nucleic / proteic

cluster_6 : nucleic / proteic

cluster_7 : nucleic / proteic

cluster_8 : nucleic / proteic

cluster_9 : nucleic / proteic

cluster_10 : nucleic / proteic

cluster_11 : nucleic / proteic

cluster_12 : nucleic / proteic

cluster_13 : nucleic / proteic

cluster_14 : nucleic / proteic

cluster_15 : nucleic / proteic

cluster_16 : nucleic / proteic

cluster_17 : nucleic / proteic

cluster_18 : nucleic / proteic

cluster_19 : nucleic / proteic

cluster_20 : nucleic / proteic

cluster_21 : nucleic / proteic

cluster_22 : nucleic / proteic

cluster_24 : nucleic / proteic

cluster_25 : nucleic / proteic

cluster_26 : nucleic / proteic

cluster_27 : nucleic / proteic

cluster_28 : nucleic / proteic

cluster_29 : nucleic / proteic

cluster_33 : nucleic / proteic

cluster_34 : nucleic / proteic

cluster_35 : nucleic / proteic

cluster_36 : nucleic / proteic

cluster_37 : nucleic / proteic

cluster_38 : nucleic / proteic

cluster_39 : nucleic / proteic

cluster_40 : nucleic / proteic

cluster_41 : nucleic / proteic

cluster_42 : nucleic / proteic

cluster_43 : nucleic / proteic

cluster_44 : nucleic / proteic

cluster_45 : nucleic / proteic

cluster_46 : nucleic / proteic

cluster_47 : nucleic / proteic

cluster_48 : nucleic / proteic

cluster_49 : nucleic / proteic

cluster_50 : nucleic / proteic

cluster_51 : nucleic / proteic

cluster_52 : nucleic / proteic

cluster_53 : nucleic / proteic

cluster_54 : nucleic / proteic

cluster_55 : nucleic / proteic

cluster_56 : nucleic / proteic

cluster_57 : nucleic / proteic

cluster_58 : nucleic / proteic

cluster_59 : nucleic / proteic

cluster_60 : nucleic / proteic

cluster_61 : nucleic / proteic

cluster_62 : nucleic / proteic

cluster_64 : nucleic / proteic

cluster_65 : nucleic / proteic

cluster_66 : nucleic / proteic

cluster_67 : nucleic / proteic

cluster_68 : nucleic / proteic

cluster_69 : nucleic / proteic

cluster_70 : nucleic / proteic

cluster_71 : nucleic / proteic

cluster_72 : nucleic / proteic

cluster_73 : nucleic / proteic

cluster_74 : nucleic / proteic

cluster_75 : nucleic / proteic

cluster_76 : nucleic / proteic

cluster_77 : nucleic / proteic

cluster_78 : nucleic / proteic

cluster_79 : nucleic / proteic

cluster_80 : nucleic / proteic

SO clusters:

cluster_31 : nucleic / proteic

cluster_82 : nucleic / proteic

cluster_113 : nucleic / proteic

cluster_116 : nucleic / proteic

cluster_174 : nucleic / proteic

cluster_182 : nucleic / proteic