WHAT IS NEW IN CONSED 17.0

Solexa and 454 reads are now fully supported.  

Solexa reads
    Millions of Solexa reads can be aligned to human-genome sized
    reference sequences and smaller selected regions viewed in consed.
    Consed can handle millions of such reads with a chromosome-sized
    reference sequence with reasonable response times.  Reports on
    variants can be produced or these regions can be conveniently
    navigated in consed.  Similarly with regions of high (or low)
    depth of coverage.

454 reads
    are now fully supported, both as part of Newbler assemblies, and
    when aligned to a reference sequence.  Problems with sff2scf and
    bringing up the traces are fixed.

Cross_match (available separately from Consed-see below)
    This familiar gapped alignment tool is now so fast that it can be
    used as a genome search engine.  For example, a million solexa
    reads can be searched against the entire (repeat masked) human
    genome in less than an hour for most desktop computers and
    datasets.  Consed-ready ace files can be prepared in a fraction
    more time.  Peak memory usage: 4 to 5 Gb.

    Reports sequence variants & confirmed segments and strength of
    evidence, for resequencing applications

    Local, Global, Semi-global, and spliced (RNAseq) alignments

    Flexible reporting of hits: all, single top, all top, 
    or top if sufficiently better than others