Alignment_Prob-master

.....................\.cvsignore

.....................\.gitignore

.....................\COPYRIGHT

.....................\Makefile

.....................\Makefile.fuzzyLZ

.....................\NOTE.nucleotide_codes

.....................\PfEMP1

.....................\README.FuzzyLZ

.....................\README.alignCompress

.....................\README.md

.....................\alignCompress

.....................\.............\AlignCompress.java

.....................\.............\C.version

.....................\.............\.........\.cvsignore

.....................\.............\.........\Makefile

.....................\.............\.........\Markov_gen.pm

.....................\.............\.........\count_markov.pl

.....................\.............\.........\extractPopData.pl

.....................\.............\.........\m-align

.....................\.............\.........\.......\.cvsignore

.....................\.............\.........\.......\COPYRIGHT

.....................\.............\.........\.......\Makefile

.....................\.............\.........\.......\README

.....................\.............\.........\.......\common.c

.....................\.............\.........\.......\common.h

.....................\.............\.........\.......\m-align.c

.....................\.............\.........\.......\markov.c

.....................\.............\.........\.......\markov.h

.....................\.............\.........\.......\markov_pred.c

.....................\.............\.........\main.c

.....................\.............\.........\main.h

.....................\.............\.........\markov.c

.....................\.............\.........\populationPlot.pl

.....................\.............\.........\populationRun.pl

.....................\.............\.........\unused.c

.....................\.............\NOTE

.....................\.............\myManifest

.....................\.............\paper

.....................\.............\.....\3state.eps

.....................\.............\.....\3state.fig

.....................\.............\.....\AI2004

.....................\.............\.....\......\AI2004-submission.html

.....................\.............\.....\......\AI2004.ps

.....................\.............\.....\......\AI2004.tex

.....................\.............\.....\......\AI2004.tex.bak

.....................\.............\.....\......\AI2004.tgz

.....................\.............\.....\......\Makefile

.....................\.............\.....\......\history.txt

.....................\.............\.....\......\llncs.cls

.....................\.............\.....\......\llncs.dem

.....................\.............\.....\......\llncs.doc

.....................\.............\.....\......\llncs.dvi

.....................\.............\.....\......\llncs.ind

.....................\.............\.....\......\llncs2e.zip

.....................\.............\.....\......\llncsdoc.sty

.....................\.............\.....\......\read.me

.....................\.............\.....\......\roc_blend.eps

.....................\.............\.....\......\roc_uni_0.eps

.....................\.............\.....\......\splncs.bst

.....................\.............\.....\......\sprmindx.sty

.....................\.............\.....\......\subjidx.ind

.....................\.............\.....\Makefile

.....................\.............\.....\PfEMP1.notes

.....................\.............\.....\acm_proc_article-sp.cls

.....................\.............\.....\alignCompress.tex

.....................\.............\.....\alternate.tex

.....................\.............\.....\bioinformatics-submitted.txt

.....................\.............\.....\bioinformatics2003-reject.txt

.....................\.............\.....\bioinformatics2003.tex

.....................\.............\.....\ismb2003-reject.txt

.....................\.............\.....\ismb2003.tex

.....................\.............\.....\local.eps

.....................\.............\.....\local.fig

.....................\......