BOL

There are varied sources of information that can provide clues regarding the correctness of assemblies. Examples of such data are: Mate-pair information, unused read information, correlated polymorphisms, consistency of assembly with the parameters of the sequencing process and optical mapping data. 

Following tools are useful for validation process:

You can try the following as well:

Assembly Likelihood Evaluation (ALE) framework http://bioinformatics.oxfordjournals.org/content/29/4/435

Computing Genome Assembly Likelihoods (CGAL) http://genomebiology.biomedcentral.com/articles/10.1186/gb-2013-14-1-r8

I used these two tools for validaions, hope useful. 

REAPR: a universal tool for genome assembly evaluation http://genomebiology.biomedcentral.com/articles/10.1186/gb-2013-14-5-r47

QUAST: quality assessment tool for genome assemblies http://bioinformatics.oxfordjournals.org/content/29/8/1072

I will recomment you to check following BOL links

http://bioinformaticsonline.com/pages/view/30242/genome-assembly-tools-and-software-part1

http://bioinformaticsonline.com/pages/view/30440/genome-assembly-tools-and-software-part2