Chapter 6

NextGENe Online Help : Sequence Alignment Tool

Sequence Alignment Tool

The NextGENe Sequence Alignment tool matches short sequence reads to a reference sequence. The reference sequence can be a small genome or genomic region (250 Mbp or less) or it can be a whole large genome reference such as the human, mouse, or rat genome.

What are you interested in?

• NextGENe Sequence Alignment Algorithms

• Sequence Alignment Tool Settings

• Paired Reads Sequence Alignment in the NextGENe Sequence Alignment Tool

• Transcriptome Alignment Project with Alternative Splicing in the NextGENe Sequence Alignment Tool

• STR Analysis Project in the NextGENe Sequence Alignment Tool

• HLA Analysis Project in the NextGENe Sequence Alignment Tool

• Mitochondrial Amplicon Analysis Project in the NextGENe Sequence Alignment ToolSequence Alignment Project Output Files

• Sequence Alignment Project Output Files

The NextGENe application also has the NextGENe Viewer, which is a viewing and editing tool that you can use to view the results of the Sequence Alignment tool and produce a variety of interactive reports that summarize the sequence alignment information.NextGENe Viewer.