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IUB codes in input sequences caused the code to segfault.
Coseg will now randomly choose a nucleotide to substitute
each time it encounters one in in the input sequence. It
will also inform the user when doing so. Thanks to David
Ray for reporting this and suggesting the fix.
Fixed the svg tag so that the files
will directly load in HTML5 web browsers.
Calculation of divergence has been improved.
We now use kimura substition distance with CpG
site accounting modifications instead of the
mixed substition and indel calculation.
Produce a warning if emutfrac is not within expected
range, rather than crashing.