Circular DNA
Circular DNA — including plasmids, cccDNA (covalently closed circular DNA formed by viruses in the host cell nucleus), circular bacterial chromosomes, mitochondrial DNA and chloroplast DNA — is a cousin of linear DNA, yet it is still far less well understood.
Tool features
- Automatic strand-orientation detection: you do not need to decide which strand is forward; the program detects it and reverse-complements the sequences that need to be flipped.
- Automatic circular origin selection: no origin has to be specified in advance; the program chooses a linearization start point for each sequence from the shared conserved blocks.
- IUPAC degenerate base support: R/Y/S/W/K/M/B/D/H/V/N are aligned and counted using the standard base-compatibility rules.
- Two output formats: download the FASTA alignment for downstream analysis, or the SVG vector figure for papers, reports or web pages.
- Circular visualization: the SVG displays conservation, gap frequency, the gap distribution of each sequence, sequence orientation and rotation.
- In-browser download: results can be downloaded directly in the browser once the alignment is complete, with no extra software.