During the past week a number new features have been implemented, some improvements have been made and a number of bugs have been fixed.

The major addition for this release is a brand new visualization method for multiple alignments.
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New features

• Parser for MAQ snp data
• Parser for MAF multiple alignments
• Complete new visualization for MAF formatted multiple alignments
• Show insertions in short read alignments with a tooltip that shows the inserted bases.
• Parser for TAIR TBL formatted annotation files

Improvements

• Improved multiple alignment tooltip
• Graphs can now also be displayed as bar charts
• Tooltip with the actual value when hovering over a wiggle track
• Double the resolution of the wiggle track
• Implemented single-instance in a portable non-webstart way

Bug fixes

• Syntenic and multiple alignment tracks are properly cleared when using 'clear entries'
• Fixed some race condition exceptions when loading multiple files at once
• Alignments blocks always stick in the same place between repaints
• Fixed missing first nucleotide value in the wiggle track