This directory (http://www.stellabase.org/introns/suppldata/index.html) containsthe supplmental data for Sullivan et al 2006, Genome Informatics, 17:219-229.

Data is comprised of three parts:

1) Alignments
This link allows for the alignments utilized in our analysis to be downloaded in a zipped archive folder.  All alignments are in 'msf' format, which can be opened using Genedoc or a text editor, or can be converted into another file format using Readseq.  

IMPORTANT NOTE: In certain instances, the Nematostella EST which we utilized in our analysis extended either in the 5' (more commonly) or 3' (less commonly) direction beyond the alignment utilized in Rogozin et al.  In order to maintain consistency of the placement of introns (see Part 2, below), the overhanging 5' or 3' portions of these alignments were trimmed to match the alignment length.  These edited alingments are saved with the notation '_phy' just before the file extension.  The original alingment is still available without this modifier.

2) Intron Matrices with intron positions
This text file indicates the placement of introns within conserved regions of each alignment.

3) Concatenated Intron Matrix
This file contains an 'aligned' intron character dataset in Phylip file format, with '0' indicating absence of an intron and '1' indicating presence of an intron.