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There're a couple of subtle bugs in handling long sequences in output_cns_results(). One can result in looping that results in memory exhaustion. Another allows sequences longer than the defined maximum sequence length going through. This patch fixes the first by fixing the loop termination conditions, and the latter by reducing the block size slightly.
I also changed added logic to change the terminal range of split sequence to match the end of the given range, as the sequence length and range length might not be the same.