The Ciona genome shotgun assembly was constructed with the DOE Joint Genome Institute (JGI) assembler, JAZZ, paired end sequencing reads at a coverage of 8.2X produced at the JGI. The assembly contains 116.7 million base pairs of nonrepetitive sequence in 2,501 scaffolds greater than 3 kb. Half of this (60 Mbp) is assembled into 117 scaffolds longer than 190 Kbp; 85% of the assembly (104.1 Mbp) is found in 905 scaffolds longer than 20 kb. Gene modeling and analysis were performed at the JGI.
The alignments were made with blat in translated protein mode requiring two nearby 4-mer matches to trigger a detailed alignment.
These data were freely provided by the JGI for use in this publication/correspondence only.
The 1.0 draft from http://genome.jgi-psf.org/ciona4/ciona4.info.htm was used in these alignments.
Kent, W.J. BLAT - the BLAST-like alignment tool. Genome Res. 12(4), 656-664 (2002).