seq1 = /nfs/disk21/birney/prog/wise2/example/human.rev, 5368 bp
seq2 = temp.cdna (>HSHNCPA1), 1198 bp

(complement)
486-503  (10-27)   83% ==
1048-1117  (194-265)   93% <-
1408-1563  (266-421)   100% <-
2501-2575  (422-496)   100% <-
2710-2802  (497-589)   100% <-
2889-2981  (590-682)   100% <-
3075-3285  (683-893)   100% <-
3434-3580  (894-1040)   100% <-
3876-3992  (1041-1157)   100% <-
4556-4596  (1158-1198)   100%