This track shows the position of gaps — represented by Ns — within the C. intestinalis assembly. Gaps of 50 or more bases were most likely introduced by the JGI JAZZ assembler.
For a discussion of gaps and the JAZZ assembler see Dehal, P. et al. (2002) in the References section below.
Gaps are represented by boxes. If the relative order and orientation of the contigs on either side of the gap is known from mRNA, ESTs, or paired BAC end reads, it is a bridged gap, indicated by a white line drawn through the box. The display must be sufficiently zoomed in to view this feature. In full display mode, the item label indicates the type of gap and whether the gap is bridged.
Dehal, P. et al. The Draft Genome of Ciona intestinalis: Insights into Chordate and Vertebrate Origins (Supplemental Materials). Science. 298(5601), 2157-67 (2002).