A contig is a contigous sequence of DNA assembled from individual reads, interrupted by either repetitive sequences (which form their own contigs; see http://contig.files.wordpress.com/2010/02/contig-graph.jpg, contig 3) or true gaps (no

reads, usually due to regions that were lost during PCR amplification.

In the context of genome assemblies, a singleton is a non-assembled read, usually a contamination or bad quality read. In gene context, it refers to a non-duplicate gene.

Finally. isotig is a term used in Newbler assemblies and denotes one variant within an isogroup. In eukaryotic transcriptome sequencing that usually equals a splice variant. Thus in your case, this should not come into play.

A contig is a contigous sequence of DNA assembled from individual reads, interrupted by either repetitive sequences (which form their own contigs; see http://contig.files.wordpress.com/2010/02/contig-graph.jpg, contig 3) or true gaps (no

reads, usually due to regions that were lost during PCR amplification.

In the context of genome assemblies, a singleton is a non-assembled read, usually a contamination or bad quality read. In gene context, it refers to a non-duplicate gene.

Finally. isotig is a term used in Newbler assemblies and denotes one variant within an isogroup. In eukaryotic transcriptome sequencing that usually equals a splice variant. Thus in your case, this should not come into play.

Dear Christian Rückert ,

I can't thank you enough for your explicit answer.Since many days I have been finding my answers.