These files contain programs for aligning sequences progressively.

(see:
      Hardison, R. C., Chao, K.-M., Adamkiewicz, M., Price, D., Jackson, J., Zeigler, T., 
     Stojanovic, N. and Miller, W., 1993, Positive and Negative Regulatory Elements of the 
     Rabbit Embryonic e-Globin Gene Revealed by an Improved Multiple Alignment Program 
     and Functional Analysis, DNA Sequence, 4: 163-176.

     Hardison, R. C., Chao, K.-M., Schwartz, S., Stojanovic, N., Ganetsky, M. and Miller, W., 
    1994, Globin Gene Server: A Prototype E-Mail Database Server Featuring Extensive Multiple 
    Alignments and Data Compilation for Electronic Genetic Analysis, Genomics,  21: 344-353.

     Chao, K.-M., Hardison R. C. and Miller, W., 1994, Recent Developments in Linear-Space 
     Alignment Methods: a Survey, Journal of Computational Biology, 1: 271-291. 
)

This package contains the following files:

README
README.yama
README.yama2
README.yama3
Makefile
yama.c  lib.c (yama)
yama2.c get_blocks.c lib.c (yama2)
sub.h AC.h yama3.c get_blocks.c lib.c AC.c (yama3)
man.yama (a manual page (in troff format) for yama)
man.yama2 (manual pages (in troff format) for yama2)
man.yama3 (manual pages (in troff format) for yama3)

To make a compiled version under UNIX, type "make".