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 $epsilon$-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 sever
       featuring extensive multiple alignments and data compilation
       for electronic genetic analysis"
      Genomics, in press.

      Chao, K.-M., Hardison, R. C. and Miller, W. (1994)
      "Recent developments in linear-space alignment methods:
       a mini survey"
      Submitted.
)

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".