cat6exon.cds.fasta--FASTA format. The alignment of concatenated exons of the following six markers, C2At1g14850, C2At1g30540, C2At1g67700, C2At1g74470, C2At3g15380 and C2At4g16580.
cat6exon.olp.cds.nex--NEXUS format. The overlapping region of the above file as input  to PAUP*4.0
cat6exon.olp.cds.paup.txt--batch file used to run PAUP*4.0
cat6exon.olp.cds.modelout--output file of MODELTEST with the chosen DNA substitution model for PAUP*4.0
cat6exon.olp.cds.rooted-ml.tre--the maximum likelihood tree
cat6exon.olp.cds.log--log file of PAUP*4.0. The majority-consensus bootstrap tree is shown at the end.
cat6exon.olp.r8s.out--output file of r8s. The calibration point was 27.7MYA for tomato-Nicotiana split. We used 1.0 for the calculation and then multiply all the estimates by 27.7 for publication.