I thought initially I could just split on new line, but I cant due to the sequence data occurring over several lines

Split on entire records, a record being header + sequence.  It looks like the appropriate record separator would be newline followed by '>' (i.e. "\n>"). Then split each record into header and sequence, by treating stuff up to the first newline as header.

In reply to Re: splitting data advice required by almut
in thread Reaped: sorry -double post by NodeReaper

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