Version 13 Add support for reading in indexed BCF (Binary VCF) files. Memory optimisation of codon caching, reducing the memory footprint. It is now possible to add BAM, VCF and BCF files from the command line using the JVM bam option, e.g. art -Dbam=/pathToFile/file.bam and for multiple BAM's/VCF's this is comma separated art -Dbam='/pathToFile/file1.bam,/pathToFile/file2.bam', it can also read the BAM's from URL's. Added option to display orientation of reads in BamView. In Bamview, display reads that are split over introns so that the exon boundaries can be identified by colouring the line between the aligned blocks grey. Add VCF panel to ACT. Support added to read indexed fasta sequence files. An index file is created using SAMtools. Add support for VCF v3.3 and v4.0. Add option to show combined coverage plots for multiple BAMs. Add show_forward_lines and show_reverse_lines as options for switching frame lines on and off. Add an option to delete qualifiers in the Find/Replace tool. Artemis can read in a set of zipped search results (e.g. blastp/blastp.zip). Add BamView panel to ACT. Fix for writing EMBL files out from GFF entries. An option has been added in BamView to colour reads by the colour used in the coverage plot - useful when looking at multiple BAM files. Plot multiple coverage plots in BamView when multiple BAM files are loaded in.